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IMP Reference Guide  2.25.0
The Integrative Modeling Platform
__init__.py
1 # This file was automatically generated by SWIG (https://www.swig.org).
2 # Version 4.4.1
3 #
4 # Do not make changes to this file unless you know what you are doing - modify
5 # the SWIG interface file instead.
6 
7 
8 # This wrapper is part of IMP,
9 # Copyright 2007-2026 IMP Inventors. All rights reserved.
10 
11 
12 
13 
14 from sys import version_info as _swig_python_version_info
15 import _IMP_kernel
16 
17 try:
18  import builtins as __builtin__
19 except ImportError:
20  import __builtin__
21 
22 def _swig_repr(self):
23  try:
24  strthis = "proxy of " + self.this.__repr__()
25  except __builtin__.Exception:
26  strthis = ""
27  return "<%s.%s; %s >" % (self.__class__.__module__, self.__class__.__name__, strthis,)
28 
29 
30 def _swig_setattr_nondynamic_instance_variable(set):
31  def set_instance_attr(self, name, value):
32  if name == "this":
33  set(self, name, value)
34  elif name == "thisown":
35  self.this.own(value)
36  elif hasattr(self, name) and isinstance(getattr(type(self), name), property):
37  set(self, name, value)
38  else:
39  raise AttributeError("You cannot add instance attributes to %s" % self)
40  return set_instance_attr
41 
42 
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):
46  set(cls, name, value)
47  else:
48  raise AttributeError("You cannot add class attributes to %s" % cls)
49  return set_class_attr
50 
51 
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"""
54  def wrapper(cls):
55  return metaclass(cls.__name__, cls.__bases__, cls.__dict__.copy())
56  return wrapper
57 
58 
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__)
62 
63 
64 import weakref
65 
66 class IMP_KERNEL_SwigPyIterator(object):
67  r"""Proxy of C++ swig::IMP_KERNEL_SwigPyIterator class."""
68 
69  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
70 
71  def __init__(self, *args, **kwargs):
72  raise AttributeError("No constructor defined - class is abstract")
73  __repr__ = _swig_repr
74  __swig_destroy__ = _IMP_kernel.delete_IMP_KERNEL_SwigPyIterator
75 
76  def value(self):
77  r"""value(IMP_KERNEL_SwigPyIterator self) -> PyObject *"""
78  return _IMP_kernel.IMP_KERNEL_SwigPyIterator_value(self)
79 
80  def incr(self, n=1):
81  r"""incr(IMP_KERNEL_SwigPyIterator self, size_t n=1) -> IMP_KERNEL_SwigPyIterator"""
82  return _IMP_kernel.IMP_KERNEL_SwigPyIterator_incr(self, n)
83 
84  def decr(self, n=1):
85  r"""decr(IMP_KERNEL_SwigPyIterator self, size_t n=1) -> IMP_KERNEL_SwigPyIterator"""
86  return _IMP_kernel.IMP_KERNEL_SwigPyIterator_decr(self, n)
87 
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)
91 
92  def equal(self, x):
93  r"""equal(IMP_KERNEL_SwigPyIterator self, IMP_KERNEL_SwigPyIterator x) -> bool"""
94  return _IMP_kernel.IMP_KERNEL_SwigPyIterator_equal(self, x)
95 
96  def copy(self):
97  r"""copy(IMP_KERNEL_SwigPyIterator self) -> IMP_KERNEL_SwigPyIterator"""
98  return _IMP_kernel.IMP_KERNEL_SwigPyIterator_copy(self)
99 
100  def next(self):
101  r"""next(IMP_KERNEL_SwigPyIterator self) -> PyObject *"""
102  return _IMP_kernel.IMP_KERNEL_SwigPyIterator_next(self)
103 
104  def __next__(self):
105  r"""__next__(IMP_KERNEL_SwigPyIterator self) -> PyObject *"""
106  return _IMP_kernel.IMP_KERNEL_SwigPyIterator___next__(self)
107 
108  def previous(self):
109  r"""previous(IMP_KERNEL_SwigPyIterator self) -> PyObject *"""
110  return _IMP_kernel.IMP_KERNEL_SwigPyIterator_previous(self)
111 
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)
115 
116  def __eq__(self, x):
117  r"""__eq__(IMP_KERNEL_SwigPyIterator self, IMP_KERNEL_SwigPyIterator x) -> bool"""
118  return _IMP_kernel.IMP_KERNEL_SwigPyIterator___eq__(self, x)
119 
120  def __ne__(self, x):
121  r"""__ne__(IMP_KERNEL_SwigPyIterator self, IMP_KERNEL_SwigPyIterator x) -> bool"""
122  return _IMP_kernel.IMP_KERNEL_SwigPyIterator___ne__(self, x)
123 
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)
127 
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)
131 
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)
135 
136  def __sub__(self, *args):
137  r"""
138  __sub__(IMP_KERNEL_SwigPyIterator self, ptrdiff_t n) -> IMP_KERNEL_SwigPyIterator
139  __sub__(IMP_KERNEL_SwigPyIterator self, IMP_KERNEL_SwigPyIterator x) -> ptrdiff_t
140  """
141  return _IMP_kernel.IMP_KERNEL_SwigPyIterator___sub__(self, *args)
142  def __iter__(self):
143  return self
144 
145 # Register IMP_KERNEL_SwigPyIterator in _IMP_kernel:
146 _IMP_kernel.IMP_KERNEL_SwigPyIterator_swigregister(IMP_KERNEL_SwigPyIterator)
147 
148 _value_types=[]
149 _object_types=[]
150 _raii_types=[]
151 _plural_types=[]
152 
153 IMP_DEBUG = _IMP_kernel.IMP_DEBUG
154 
155 IMP_RELEASE = _IMP_kernel.IMP_RELEASE
156 
157 IMP_SILENT = _IMP_kernel.IMP_SILENT
158 
159 IMP_PROGRESS = _IMP_kernel.IMP_PROGRESS
160 
161 IMP_TERSE = _IMP_kernel.IMP_TERSE
162 
163 IMP_VERBOSE = _IMP_kernel.IMP_VERBOSE
164 
165 IMP_MEMORY = _IMP_kernel.IMP_MEMORY
166 
167 IMP_NONE = _IMP_kernel.IMP_NONE
168 
169 IMP_USAGE = _IMP_kernel.IMP_USAGE
170 
171 IMP_INTERNAL = _IMP_kernel.IMP_INTERNAL
172 
173 IMP_KERNEL_HAS_LOG4CXX = _IMP_kernel.IMP_KERNEL_HAS_LOG4CXX
174 
175 IMP_COMPILER_HAS_CEREAL_RAW_POINTER = _IMP_kernel.IMP_COMPILER_HAS_CEREAL_RAW_POINTER
176 
177 IMP_COMPILER_HAS_DEBUG_VECTOR = _IMP_kernel.IMP_COMPILER_HAS_DEBUG_VECTOR
178 
179 IMP_COMPILER_HAS_RANDOM_SHUFFLE = _IMP_kernel.IMP_COMPILER_HAS_RANDOM_SHUFFLE
180 
181 IMP_COMPILER_HAS_THREE_WAY = _IMP_kernel.IMP_COMPILER_HAS_THREE_WAY
182 
183 IMP_KERNEL_HAS_BOOST_RANDOM = _IMP_kernel.IMP_KERNEL_HAS_BOOST_RANDOM
184 
185 IMP_KERNEL_HAS_NUMPY = _IMP_kernel.IMP_KERNEL_HAS_NUMPY
186 
187 IMP_KERNEL_HAS_BOOST_SYSTEM = _IMP_kernel.IMP_KERNEL_HAS_BOOST_SYSTEM
188 
189 IMP_KERNEL_HAS_GPERFTOOLS = _IMP_kernel.IMP_KERNEL_HAS_GPERFTOOLS
190 
191 IMP_KERNEL_HAS_TCMALLOC_HEAPCHECKER = _IMP_kernel.IMP_KERNEL_HAS_TCMALLOC_HEAPCHECKER
192 
193 IMP_KERNEL_HAS_TCMALLOC_HEAPPROFILER = _IMP_kernel.IMP_KERNEL_HAS_TCMALLOC_HEAPPROFILER
194 
195 IMPKERNEL_SHOW_WARNINGS = _IMP_kernel.IMPKERNEL_SHOW_WARNINGS
196 
197 
198 import sys
199 class _DirectorObjects:
200  """@internal Simple class to keep references to director objects
201  to prevent premature deletion."""
202  def __init__(self):
203  self._objects = []
204  def register(self, obj):
205  """Take a reference to a director object; will only work for
206  refcounted C++ classes"""
207  if hasattr(obj, 'get_ref_count'):
208  self._objects.append(obj)
209  def cleanup(self):
210  """Only drop our reference and allow cleanup by Python if no other
211  Python references exist (we hold 3 references: one in self._objects,
212  one in x, and one in the argument list for getrefcount) *and* no
213  other C++ references exist (the Python object always holds one)"""
214  objs = [x for x in self._objects if sys.getrefcount(x) > 3 \
215  or x.get_ref_count() > 1]
216 # Do in two steps so the references are kept until the end of the
217 # function (deleting references may trigger a fresh call to this method)
218  self._objects = objs
219  def get_object_count(self):
220  """Get number of director objects (useful for testing only)"""
221  return len(self._objects)
222 _director_objects = _DirectorObjects()
223 
224 DEFAULT_CHECK = _IMP_kernel.DEFAULT_CHECK
225 
226 NONE = _IMP_kernel.NONE
227 
228 USAGE = _IMP_kernel.USAGE
229 
230 USAGE_AND_INTERNAL = _IMP_kernel.USAGE_AND_INTERNAL
231 
232 
233 def set_check_level(tf):
234  r"""set_check_level(IMP::CheckLevel tf)"""
235  return _IMP_kernel.set_check_level(tf)
236 
237 def get_check_level():
238  r"""get_check_level() -> IMP::CheckLevel"""
239  return _IMP_kernel.get_check_level()
240 
241 from _IMP_kernel import Exception, InternalException, ModelException, EventException
242 from _IMP_kernel import UsageException, IndexException, IOException, ValueException
243 from _IMP_kernel import TypeException
244 
245 class _ostream(object):
246  r"""Proxy of C++ std::ostream class."""
247 
248  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
249 
250  def __init__(self, *args, **kwargs):
251  raise AttributeError("No constructor defined")
252  __repr__ = _swig_repr
253 
254  def write(self, osa_buf):
255  r"""write(_ostream self, char const * osa_buf)"""
256  return _IMP_kernel._ostream_write(self, osa_buf)
257 
258 # Register _ostream in _IMP_kernel:
259 _IMP_kernel._ostream_swigregister(_ostream)
260 IMP_C_OPEN_BINARY = _IMP_kernel.IMP_C_OPEN_BINARY
261 
262 
263 from . import _list_util
264 
265 
266 _models_set = weakref.WeakSet()
267 
268 def _models_set_get(m):
269  for x in _models_set:
270  if x == m:
271  return x
272 
273 
274 _raii_types.append("SetLogState")
275 
276 
277 _raii_types.append("SetNumberOfThreads")
278 
279 
280 _raii_types.append("SetCheckState")
281 
282 
283 _object_types.append("Object")
284 
285 
286 def _object_cast_to_Object(o):
287  r"""_object_cast_to_Object(Object * o) -> Object"""
288  return _IMP_kernel._object_cast_to_Object(o)
289 
290 _object_types.append("_TestObject")
291 
292 
293 def _object_cast_to__TestObject(o):
294  r"""_object_cast_to__TestObject(Object * o) -> _TestObject"""
295  return _IMP_kernel._object_cast_to__TestObject(o)
296 
297 VersionInfos=list
298 _plural_types.append("VersionInfos")
299 _value_types.append("VersionInfo")
300 
301 
302 _raii_types.append("CreateLogContext")
303 
304 
305 _raii_types.append("WarningContext")
306 
307 
308 _raii_types.append("SetLogTarget")
309 
310 
311 _TestValues=list
312 _plural_types.append("_TestValues")
313 _value_types.append("_TestValue")
314 
315 
316 Floats=list
317 _plural_types.append("Floats")
318 _value_types.append("Float")
319 
320 
321 Ints=list
322 _plural_types.append("Ints")
323 _value_types.append("Int")
324 
325 
326 Strings=list
327 _plural_types.append("Strings")
328 _value_types.append("String")
329 
330 
331 _Protections=list
332 _plural_types.append("_Protections")
333 _value_types.append("_Protection")
334 
335 class _GeometricPrimitive1D(object):
336  r"""Proxy of C++ IMP::GeometricPrimitiveD< 1 > class."""
337 
338  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
339 
340  def __init__(self, *args, **kwargs):
341  raise AttributeError("No constructor defined")
342  __repr__ = _swig_repr
343  __swig_destroy__ = _IMP_kernel.delete__GeometricPrimitive1D
344 
345 # Register _GeometricPrimitive1D in _IMP_kernel:
346 _IMP_kernel._GeometricPrimitive1D_swigregister(_GeometricPrimitive1D)
347 class _GeometricPrimitive2D(object):
348  r"""Proxy of C++ IMP::GeometricPrimitiveD< 2 > class."""
349 
350  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
351 
352  def __init__(self, *args, **kwargs):
353  raise AttributeError("No constructor defined")
354  __repr__ = _swig_repr
355  __swig_destroy__ = _IMP_kernel.delete__GeometricPrimitive2D
356 
357 # Register _GeometricPrimitive2D in _IMP_kernel:
358 _IMP_kernel._GeometricPrimitive2D_swigregister(_GeometricPrimitive2D)
359 class _GeometricPrimitive3D(object):
360  r"""Proxy of C++ IMP::GeometricPrimitiveD< 3 > class."""
361 
362  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
363 
364  def __init__(self, *args, **kwargs):
365  raise AttributeError("No constructor defined")
366  __repr__ = _swig_repr
367  __swig_destroy__ = _IMP_kernel.delete__GeometricPrimitive3D
368 
369 # Register _GeometricPrimitive3D in _IMP_kernel:
370 _IMP_kernel._GeometricPrimitive3D_swigregister(_GeometricPrimitive3D)
371 class _GeometricPrimitive4D(object):
372  r"""Proxy of C++ IMP::GeometricPrimitiveD< 4 > class."""
373 
374  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
375 
376  def __init__(self, *args, **kwargs):
377  raise AttributeError("No constructor defined")
378  __repr__ = _swig_repr
379  __swig_destroy__ = _IMP_kernel.delete__GeometricPrimitive4D
380 
381 # Register _GeometricPrimitive4D in _IMP_kernel:
382 _IMP_kernel._GeometricPrimitive4D_swigregister(_GeometricPrimitive4D)
383 class _GeometricPrimitive5D(object):
384  r"""Proxy of C++ IMP::GeometricPrimitiveD< 5 > class."""
385 
386  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
387 
388  def __init__(self, *args, **kwargs):
389  raise AttributeError("No constructor defined")
390  __repr__ = _swig_repr
391  __swig_destroy__ = _IMP_kernel.delete__GeometricPrimitive5D
392 
393 # Register _GeometricPrimitive5D in _IMP_kernel:
394 _IMP_kernel._GeometricPrimitive5D_swigregister(_GeometricPrimitive5D)
395 class _GeometricPrimitive6D(object):
396  r"""Proxy of C++ IMP::GeometricPrimitiveD< 6 > class."""
397 
398  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
399 
400  def __init__(self, *args, **kwargs):
401  raise AttributeError("No constructor defined")
402  __repr__ = _swig_repr
403  __swig_destroy__ = _IMP_kernel.delete__GeometricPrimitive6D
404 
405 # Register _GeometricPrimitive6D in _IMP_kernel:
406 _IMP_kernel._GeometricPrimitive6D_swigregister(_GeometricPrimitive6D)
407 class _GeometricPrimitiveKD(object):
408  r"""Proxy of C++ IMP::GeometricPrimitiveD< -1 > class."""
409 
410  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
411 
412  def __init__(self, *args, **kwargs):
413  raise AttributeError("No constructor defined")
414  __repr__ = _swig_repr
415  __swig_destroy__ = _IMP_kernel.delete__GeometricPrimitiveKD
416 
417 # Register _GeometricPrimitiveKD in _IMP_kernel:
418 _IMP_kernel._GeometricPrimitiveKD_swigregister(_GeometricPrimitiveKD)
419 class _VectorBaseKD(_GeometricPrimitiveKD):
420  r"""Proxy of C++ IMP::internal::VectorBaseD< -1 > class."""
421 
422  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
423  __repr__ = _swig_repr
424 
425  def __init__(self):
426  r"""__init__(_VectorBaseKD self) -> _VectorBaseKD"""
427  _IMP_kernel._VectorBaseKD_swiginit(self, _IMP_kernel.new__VectorBaseKD())
428 
429  def get_scalar_product(self, o):
430  r"""get_scalar_product(_VectorBaseKD self, _VectorBaseKD o) -> double"""
431  return _IMP_kernel._VectorBaseKD_get_scalar_product(self, o)
432 
433  def get_squared_magnitude(self):
434  r"""get_squared_magnitude(_VectorBaseKD self) -> double"""
435  return _IMP_kernel._VectorBaseKD_get_squared_magnitude(self)
436 
437  def get_magnitude(self):
438  r"""get_magnitude(_VectorBaseKD self) -> double"""
439  return _IMP_kernel._VectorBaseKD_get_magnitude(self)
440 
441  def get_distance(self, o):
442  r"""get_distance(_VectorBaseKD self, _VectorBaseKD o) -> double"""
443  return _IMP_kernel._VectorBaseKD_get_distance(self, o)
444 
445  def __mul__(self, o):
446  r"""__mul__(_VectorBaseKD self, _VectorBaseKD o) -> double"""
447  return _IMP_kernel._VectorBaseKD___mul__(self, o)
448 
449  def __iadd__(self, o):
450  r"""__iadd__(_VectorBaseKD self, _VectorBaseKD o) -> _VectorBaseKD"""
451  return _IMP_kernel._VectorBaseKD___iadd__(self, o)
452 
453  def __isub__(self, o):
454  r"""__isub__(_VectorBaseKD self, _VectorBaseKD o) -> _VectorBaseKD"""
455  return _IMP_kernel._VectorBaseKD___isub__(self, o)
456 
457  def __itruediv__(self, *args):
458  return _IMP_kernel._VectorBaseKD___itruediv__(self, *args)
459  __idiv__ = __itruediv__
460 
461 
462 
463  def __imul__(self, f):
464  r"""__imul__(_VectorBaseKD self, double f) -> _VectorBaseKD"""
465  return _IMP_kernel._VectorBaseKD___imul__(self, f)
466 
467  def show(self, *args):
468  r"""
469  show(_VectorBaseKD self, _ostream out, std::string delim, bool parens=True)
470  show(_VectorBaseKD self, _ostream out=std::cout)
471  """
472  return _IMP_kernel._VectorBaseKD_show(self, *args)
473 
474  def get_dimension(self):
475  r"""get_dimension(_VectorBaseKD self) -> unsigned int"""
476  return _IMP_kernel._VectorBaseKD_get_dimension(self)
477  __swig_destroy__ = _IMP_kernel.delete__VectorBaseKD
478 
479 # Register _VectorBaseKD in _IMP_kernel:
480 _IMP_kernel._VectorBaseKD_swigregister(_VectorBaseKD)
481 class _VectorBase1D(_GeometricPrimitive1D):
482  r"""Proxy of C++ IMP::internal::VectorBaseD< 1 > class."""
483 
484  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
485  __repr__ = _swig_repr
486 
487  def __init__(self):
488  r"""__init__(_VectorBase1D self) -> _VectorBase1D"""
489  _IMP_kernel._VectorBase1D_swiginit(self, _IMP_kernel.new__VectorBase1D())
490 
491  def get_scalar_product(self, o):
492  r"""get_scalar_product(_VectorBase1D self, _VectorBase1D o) -> double"""
493  return _IMP_kernel._VectorBase1D_get_scalar_product(self, o)
494 
495  def get_squared_magnitude(self):
496  r"""get_squared_magnitude(_VectorBase1D self) -> double"""
497  return _IMP_kernel._VectorBase1D_get_squared_magnitude(self)
498 
499  def get_magnitude(self):
500  r"""get_magnitude(_VectorBase1D self) -> double"""
501  return _IMP_kernel._VectorBase1D_get_magnitude(self)
502 
503  def get_distance(self, o):
504  r"""get_distance(_VectorBase1D self, _VectorBase1D o) -> double"""
505  return _IMP_kernel._VectorBase1D_get_distance(self, o)
506 
507  def __mul__(self, o):
508  r"""__mul__(_VectorBase1D self, _VectorBase1D o) -> double"""
509  return _IMP_kernel._VectorBase1D___mul__(self, o)
510 
511  def __iadd__(self, o):
512  r"""__iadd__(_VectorBase1D self, _VectorBase1D o) -> _VectorBase1D"""
513  return _IMP_kernel._VectorBase1D___iadd__(self, o)
514 
515  def __isub__(self, o):
516  r"""__isub__(_VectorBase1D self, _VectorBase1D o) -> _VectorBase1D"""
517  return _IMP_kernel._VectorBase1D___isub__(self, o)
518 
519  def __itruediv__(self, *args):
520  return _IMP_kernel._VectorBase1D___itruediv__(self, *args)
521  __idiv__ = __itruediv__
522 
523 
524 
525  def __imul__(self, f):
526  r"""__imul__(_VectorBase1D self, double f) -> _VectorBase1D"""
527  return _IMP_kernel._VectorBase1D___imul__(self, f)
528 
529  def show(self, *args):
530  r"""
531  show(_VectorBase1D self, _ostream out, std::string delim, bool parens=True)
532  show(_VectorBase1D self, _ostream out=std::cout)
533  """
534  return _IMP_kernel._VectorBase1D_show(self, *args)
535 
536  def get_dimension(self):
537  r"""get_dimension(_VectorBase1D self) -> unsigned int"""
538  return _IMP_kernel._VectorBase1D_get_dimension(self)
539  __swig_destroy__ = _IMP_kernel.delete__VectorBase1D
540 
541 # Register _VectorBase1D in _IMP_kernel:
542 _IMP_kernel._VectorBase1D_swigregister(_VectorBase1D)
543 class _VectorBase2D(_GeometricPrimitive2D):
544  r"""Proxy of C++ IMP::internal::VectorBaseD< 2 > class."""
545 
546  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
547  __repr__ = _swig_repr
548 
549  def __init__(self):
550  r"""__init__(_VectorBase2D self) -> _VectorBase2D"""
551  _IMP_kernel._VectorBase2D_swiginit(self, _IMP_kernel.new__VectorBase2D())
552 
553  def get_scalar_product(self, o):
554  r"""get_scalar_product(_VectorBase2D self, _VectorBase2D o) -> double"""
555  return _IMP_kernel._VectorBase2D_get_scalar_product(self, o)
556 
557  def get_squared_magnitude(self):
558  r"""get_squared_magnitude(_VectorBase2D self) -> double"""
559  return _IMP_kernel._VectorBase2D_get_squared_magnitude(self)
560 
561  def get_magnitude(self):
562  r"""get_magnitude(_VectorBase2D self) -> double"""
563  return _IMP_kernel._VectorBase2D_get_magnitude(self)
564 
565  def get_distance(self, o):
566  r"""get_distance(_VectorBase2D self, _VectorBase2D o) -> double"""
567  return _IMP_kernel._VectorBase2D_get_distance(self, o)
568 
569  def __mul__(self, o):
570  r"""__mul__(_VectorBase2D self, _VectorBase2D o) -> double"""
571  return _IMP_kernel._VectorBase2D___mul__(self, o)
572 
573  def __iadd__(self, o):
574  r"""__iadd__(_VectorBase2D self, _VectorBase2D o) -> _VectorBase2D"""
575  return _IMP_kernel._VectorBase2D___iadd__(self, o)
576 
577  def __isub__(self, o):
578  r"""__isub__(_VectorBase2D self, _VectorBase2D o) -> _VectorBase2D"""
579  return _IMP_kernel._VectorBase2D___isub__(self, o)
580 
581  def __itruediv__(self, *args):
582  return _IMP_kernel._VectorBase2D___itruediv__(self, *args)
583  __idiv__ = __itruediv__
584 
585 
586 
587  def __imul__(self, f):
588  r"""__imul__(_VectorBase2D self, double f) -> _VectorBase2D"""
589  return _IMP_kernel._VectorBase2D___imul__(self, f)
590 
591  def show(self, *args):
592  r"""
593  show(_VectorBase2D self, _ostream out, std::string delim, bool parens=True)
594  show(_VectorBase2D self, _ostream out=std::cout)
595  """
596  return _IMP_kernel._VectorBase2D_show(self, *args)
597 
598  def get_dimension(self):
599  r"""get_dimension(_VectorBase2D self) -> unsigned int"""
600  return _IMP_kernel._VectorBase2D_get_dimension(self)
601  __swig_destroy__ = _IMP_kernel.delete__VectorBase2D
602 
603 # Register _VectorBase2D in _IMP_kernel:
604 _IMP_kernel._VectorBase2D_swigregister(_VectorBase2D)
605 class _VectorBase3D(_GeometricPrimitive3D):
606  r"""Proxy of C++ IMP::internal::VectorBaseD< 3 > class."""
607 
608  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
609  __repr__ = _swig_repr
610 
611  def __init__(self):
612  r"""__init__(_VectorBase3D self) -> _VectorBase3D"""
613  _IMP_kernel._VectorBase3D_swiginit(self, _IMP_kernel.new__VectorBase3D())
614 
615  def get_scalar_product(self, o):
616  r"""get_scalar_product(_VectorBase3D self, _VectorBase3D o) -> double"""
617  return _IMP_kernel._VectorBase3D_get_scalar_product(self, o)
618 
619  def get_squared_magnitude(self):
620  r"""get_squared_magnitude(_VectorBase3D self) -> double"""
621  return _IMP_kernel._VectorBase3D_get_squared_magnitude(self)
622 
623  def get_magnitude(self):
624  r"""get_magnitude(_VectorBase3D self) -> double"""
625  return _IMP_kernel._VectorBase3D_get_magnitude(self)
626 
627  def get_distance(self, o):
628  r"""get_distance(_VectorBase3D self, _VectorBase3D o) -> double"""
629  return _IMP_kernel._VectorBase3D_get_distance(self, o)
630 
631  def __mul__(self, o):
632  r"""__mul__(_VectorBase3D self, _VectorBase3D o) -> double"""
633  return _IMP_kernel._VectorBase3D___mul__(self, o)
634 
635  def __iadd__(self, o):
636  r"""__iadd__(_VectorBase3D self, _VectorBase3D o) -> _VectorBase3D"""
637  return _IMP_kernel._VectorBase3D___iadd__(self, o)
638 
639  def __isub__(self, o):
640  r"""__isub__(_VectorBase3D self, _VectorBase3D o) -> _VectorBase3D"""
641  return _IMP_kernel._VectorBase3D___isub__(self, o)
642 
643  def __itruediv__(self, *args):
644  return _IMP_kernel._VectorBase3D___itruediv__(self, *args)
645  __idiv__ = __itruediv__
646 
647 
648 
649  def __imul__(self, f):
650  r"""__imul__(_VectorBase3D self, double f) -> _VectorBase3D"""
651  return _IMP_kernel._VectorBase3D___imul__(self, f)
652 
653  def show(self, *args):
654  r"""
655  show(_VectorBase3D self, _ostream out, std::string delim, bool parens=True)
656  show(_VectorBase3D self, _ostream out=std::cout)
657  """
658  return _IMP_kernel._VectorBase3D_show(self, *args)
659 
660  def get_dimension(self):
661  r"""get_dimension(_VectorBase3D self) -> unsigned int"""
662  return _IMP_kernel._VectorBase3D_get_dimension(self)
663  __swig_destroy__ = _IMP_kernel.delete__VectorBase3D
664 
665 # Register _VectorBase3D in _IMP_kernel:
666 _IMP_kernel._VectorBase3D_swigregister(_VectorBase3D)
667 class _VectorBase4D(_GeometricPrimitive4D):
668  r"""Proxy of C++ IMP::internal::VectorBaseD< 4 > class."""
669 
670  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
671  __repr__ = _swig_repr
672 
673  def __init__(self):
674  r"""__init__(_VectorBase4D self) -> _VectorBase4D"""
675  _IMP_kernel._VectorBase4D_swiginit(self, _IMP_kernel.new__VectorBase4D())
676 
677  def get_scalar_product(self, o):
678  r"""get_scalar_product(_VectorBase4D self, _VectorBase4D o) -> double"""
679  return _IMP_kernel._VectorBase4D_get_scalar_product(self, o)
680 
681  def get_squared_magnitude(self):
682  r"""get_squared_magnitude(_VectorBase4D self) -> double"""
683  return _IMP_kernel._VectorBase4D_get_squared_magnitude(self)
684 
685  def get_magnitude(self):
686  r"""get_magnitude(_VectorBase4D self) -> double"""
687  return _IMP_kernel._VectorBase4D_get_magnitude(self)
688 
689  def get_distance(self, o):
690  r"""get_distance(_VectorBase4D self, _VectorBase4D o) -> double"""
691  return _IMP_kernel._VectorBase4D_get_distance(self, o)
692 
693  def __mul__(self, o):
694  r"""__mul__(_VectorBase4D self, _VectorBase4D o) -> double"""
695  return _IMP_kernel._VectorBase4D___mul__(self, o)
696 
697  def __iadd__(self, o):
698  r"""__iadd__(_VectorBase4D self, _VectorBase4D o) -> _VectorBase4D"""
699  return _IMP_kernel._VectorBase4D___iadd__(self, o)
700 
701  def __isub__(self, o):
702  r"""__isub__(_VectorBase4D self, _VectorBase4D o) -> _VectorBase4D"""
703  return _IMP_kernel._VectorBase4D___isub__(self, o)
704 
705  def __itruediv__(self, *args):
706  return _IMP_kernel._VectorBase4D___itruediv__(self, *args)
707  __idiv__ = __itruediv__
708 
709 
710 
711  def __imul__(self, f):
712  r"""__imul__(_VectorBase4D self, double f) -> _VectorBase4D"""
713  return _IMP_kernel._VectorBase4D___imul__(self, f)
714 
715  def show(self, *args):
716  r"""
717  show(_VectorBase4D self, _ostream out, std::string delim, bool parens=True)
718  show(_VectorBase4D self, _ostream out=std::cout)
719  """
720  return _IMP_kernel._VectorBase4D_show(self, *args)
721 
722  def get_dimension(self):
723  r"""get_dimension(_VectorBase4D self) -> unsigned int"""
724  return _IMP_kernel._VectorBase4D_get_dimension(self)
725  __swig_destroy__ = _IMP_kernel.delete__VectorBase4D
726 
727 # Register _VectorBase4D in _IMP_kernel:
728 _IMP_kernel._VectorBase4D_swigregister(_VectorBase4D)
729 class _VectorBase5D(_GeometricPrimitive5D):
730  r"""Proxy of C++ IMP::internal::VectorBaseD< 5 > class."""
731 
732  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
733  __repr__ = _swig_repr
734 
735  def __init__(self):
736  r"""__init__(_VectorBase5D self) -> _VectorBase5D"""
737  _IMP_kernel._VectorBase5D_swiginit(self, _IMP_kernel.new__VectorBase5D())
738 
739  def get_scalar_product(self, o):
740  r"""get_scalar_product(_VectorBase5D self, _VectorBase5D o) -> double"""
741  return _IMP_kernel._VectorBase5D_get_scalar_product(self, o)
742 
743  def get_squared_magnitude(self):
744  r"""get_squared_magnitude(_VectorBase5D self) -> double"""
745  return _IMP_kernel._VectorBase5D_get_squared_magnitude(self)
746 
747  def get_magnitude(self):
748  r"""get_magnitude(_VectorBase5D self) -> double"""
749  return _IMP_kernel._VectorBase5D_get_magnitude(self)
750 
751  def get_distance(self, o):
752  r"""get_distance(_VectorBase5D self, _VectorBase5D o) -> double"""
753  return _IMP_kernel._VectorBase5D_get_distance(self, o)
754 
755  def __mul__(self, o):
756  r"""__mul__(_VectorBase5D self, _VectorBase5D o) -> double"""
757  return _IMP_kernel._VectorBase5D___mul__(self, o)
758 
759  def __iadd__(self, o):
760  r"""__iadd__(_VectorBase5D self, _VectorBase5D o) -> _VectorBase5D"""
761  return _IMP_kernel._VectorBase5D___iadd__(self, o)
762 
763  def __isub__(self, o):
764  r"""__isub__(_VectorBase5D self, _VectorBase5D o) -> _VectorBase5D"""
765  return _IMP_kernel._VectorBase5D___isub__(self, o)
766 
767  def __itruediv__(self, *args):
768  return _IMP_kernel._VectorBase5D___itruediv__(self, *args)
769  __idiv__ = __itruediv__
770 
771 
772 
773  def __imul__(self, f):
774  r"""__imul__(_VectorBase5D self, double f) -> _VectorBase5D"""
775  return _IMP_kernel._VectorBase5D___imul__(self, f)
776 
777  def show(self, *args):
778  r"""
779  show(_VectorBase5D self, _ostream out, std::string delim, bool parens=True)
780  show(_VectorBase5D self, _ostream out=std::cout)
781  """
782  return _IMP_kernel._VectorBase5D_show(self, *args)
783 
784  def get_dimension(self):
785  r"""get_dimension(_VectorBase5D self) -> unsigned int"""
786  return _IMP_kernel._VectorBase5D_get_dimension(self)
787  __swig_destroy__ = _IMP_kernel.delete__VectorBase5D
788 
789 # Register _VectorBase5D in _IMP_kernel:
790 _IMP_kernel._VectorBase5D_swigregister(_VectorBase5D)
791 class _VectorBase6D(_GeometricPrimitive6D):
792  r"""Proxy of C++ IMP::internal::VectorBaseD< 6 > class."""
793 
794  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
795  __repr__ = _swig_repr
796 
797  def __init__(self):
798  r"""__init__(_VectorBase6D self) -> _VectorBase6D"""
799  _IMP_kernel._VectorBase6D_swiginit(self, _IMP_kernel.new__VectorBase6D())
800 
801  def get_scalar_product(self, o):
802  r"""get_scalar_product(_VectorBase6D self, _VectorBase6D o) -> double"""
803  return _IMP_kernel._VectorBase6D_get_scalar_product(self, o)
804 
805  def get_squared_magnitude(self):
806  r"""get_squared_magnitude(_VectorBase6D self) -> double"""
807  return _IMP_kernel._VectorBase6D_get_squared_magnitude(self)
808 
809  def get_magnitude(self):
810  r"""get_magnitude(_VectorBase6D self) -> double"""
811  return _IMP_kernel._VectorBase6D_get_magnitude(self)
812 
813  def get_distance(self, o):
814  r"""get_distance(_VectorBase6D self, _VectorBase6D o) -> double"""
815  return _IMP_kernel._VectorBase6D_get_distance(self, o)
816 
817  def __mul__(self, o):
818  r"""__mul__(_VectorBase6D self, _VectorBase6D o) -> double"""
819  return _IMP_kernel._VectorBase6D___mul__(self, o)
820 
821  def __iadd__(self, o):
822  r"""__iadd__(_VectorBase6D self, _VectorBase6D o) -> _VectorBase6D"""
823  return _IMP_kernel._VectorBase6D___iadd__(self, o)
824 
825  def __isub__(self, o):
826  r"""__isub__(_VectorBase6D self, _VectorBase6D o) -> _VectorBase6D"""
827  return _IMP_kernel._VectorBase6D___isub__(self, o)
828 
829  def __itruediv__(self, *args):
830  return _IMP_kernel._VectorBase6D___itruediv__(self, *args)
831  __idiv__ = __itruediv__
832 
833 
834 
835  def __imul__(self, f):
836  r"""__imul__(_VectorBase6D self, double f) -> _VectorBase6D"""
837  return _IMP_kernel._VectorBase6D___imul__(self, f)
838 
839  def show(self, *args):
840  r"""
841  show(_VectorBase6D self, _ostream out, std::string delim, bool parens=True)
842  show(_VectorBase6D self, _ostream out=std::cout)
843  """
844  return _IMP_kernel._VectorBase6D_show(self, *args)
845 
846  def get_dimension(self):
847  r"""get_dimension(_VectorBase6D self) -> unsigned int"""
848  return _IMP_kernel._VectorBase6D_get_dimension(self)
849  __swig_destroy__ = _IMP_kernel.delete__VectorBase6D
850 
851 # Register _VectorBase6D in _IMP_kernel:
852 _IMP_kernel._VectorBase6D_swigregister(_VectorBase6D)
853 class _InputAdaptor(object):
854  r"""Proxy of C++ IMP::InputAdaptor class."""
855 
856  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
857 
858  def __init__(self, *args, **kwargs):
859  raise AttributeError("No constructor defined")
860  __repr__ = _swig_repr
861 
862  def __getstate__(self):
863  raise NotImplementedError(str(self.__class__)
864  + " does not support serialization")
865 
866  __swig_destroy__ = _IMP_kernel.delete__InputAdaptor
867 
868 # Register _InputAdaptor in _IMP_kernel:
869 _IMP_kernel._InputAdaptor_swigregister(_InputAdaptor)
870 class _NonCopyable(object):
871  r"""Proxy of C++ IMP::NonCopyable class."""
872 
873  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
874 
875  def __init__(self, *args, **kwargs):
876  raise AttributeError("No constructor defined")
877  __repr__ = _swig_repr
878  __swig_destroy__ = _IMP_kernel.delete__NonCopyable
879 
880 # Register _NonCopyable in _IMP_kernel:
881 _IMP_kernel._NonCopyable_swigregister(_NonCopyable)
882 class _RAII(_NonCopyable):
883  r"""Proxy of C++ IMP::RAII class."""
884 
885  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
886 
887  def __init__(self, *args, **kwargs):
888  raise AttributeError("No constructor defined")
889  __repr__ = _swig_repr
890  __swig_destroy__ = _IMP_kernel.delete__RAII
891 
892 # Register _RAII in _IMP_kernel:
893 _IMP_kernel._RAII_swigregister(_RAII)
894 class _Value(object):
895  r"""Proxy of C++ IMP::Value class."""
896 
897  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
898 
899  def __init__(self, *args, **kwargs):
900  raise AttributeError("No constructor defined")
901  __repr__ = _swig_repr
902 
903  def __getstate__(self):
904  raise NotImplementedError(str(self.__class__)
905  + " does not support serialization")
906 
907  __swig_destroy__ = _IMP_kernel.delete__Value
908 
909 # Register _Value in _IMP_kernel:
910 _IMP_kernel._Value_swigregister(_Value)
911 
912 def get_executable_name():
913  r"""get_executable_name() -> std::string"""
914  return _IMP_kernel.get_executable_name()
915 
916 def setup_from_argv(*args):
917  r"""
918  setup_from_argv(IMP::Strings const & argv, std::string description)
919  setup_from_argv(IMP::Strings const & argv, std::string description, std::string positional_description, int num_positional) -> IMP::Strings
920  """
921  return _IMP_kernel.setup_from_argv(*args)
922 
923 def add_string_flag(name, default_value, description):
924  r"""add_string_flag(std::string name, std::string default_value, std::string description)"""
925  return _IMP_kernel.add_string_flag(name, default_value, description)
926 
927 def get_string_flag(name):
928  r"""get_string_flag(std::string name) -> std::string"""
929  return _IMP_kernel.get_string_flag(name)
930 
931 def add_int_flag(name, default_value, description):
932  r"""add_int_flag(std::string name, size_t default_value, std::string description)"""
933  return _IMP_kernel.add_int_flag(name, default_value, description)
934 
935 def get_int_flag(name):
936  r"""get_int_flag(std::string name) -> size_t"""
937  return _IMP_kernel.get_int_flag(name)
938 
939 def add_bool_flag(name, description):
940  r"""add_bool_flag(std::string name, std::string description)"""
941  return _IMP_kernel.add_bool_flag(name, description)
942 
943 def get_bool_flag(name):
944  r"""get_bool_flag(std::string name) -> bool"""
945  return _IMP_kernel.get_bool_flag(name)
946 
947 def add_float_flag(name, default_value, description):
948  r"""add_float_flag(std::string name, double default_value, std::string description)"""
949  return _IMP_kernel.add_float_flag(name, default_value, description)
950 
951 def get_float_flag(name):
952  r"""get_float_flag(std::string name) -> double"""
953  return _IMP_kernel.get_float_flag(name)
954 
955 def write_help(*args):
956  r"""write_help(_ostream out=std::cerr)"""
957  return _IMP_kernel.write_help(*args)
958 
959 def get_is_quick_test():
960  r"""get_is_quick_test() -> bool"""
961  return _IMP_kernel.get_is_quick_test()
962 DEFAULT = _IMP_kernel.DEFAULT
963 
964 SILENT = _IMP_kernel.SILENT
965 
966 WARNING = _IMP_kernel.WARNING
967 
968 PROGRESS = _IMP_kernel.PROGRESS
969 
970 TERSE = _IMP_kernel.TERSE
971 
972 VERBOSE = _IMP_kernel.VERBOSE
973 
974 MEMORY = _IMP_kernel.MEMORY
975 
976 ALL_LOG = _IMP_kernel.ALL_LOG
977 
978 class VersionInfo(_Value):
979  r"""Proxy of C++ IMP::VersionInfo class."""
980 
981  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
982 
983  def __init__(self, *args):
984  r"""
985  __init__(VersionInfo self, std::string module, std::string version) -> VersionInfo
986  __init__(VersionInfo self) -> VersionInfo
987  """
988  _IMP_kernel.VersionInfo_swiginit(self, _IMP_kernel.new_VersionInfo(*args))
989 
990  def get_module(self):
991  r"""get_module(VersionInfo self) -> std::string"""
992  return _IMP_kernel.VersionInfo_get_module(self)
993 
994  def get_version(self):
995  r"""get_version(VersionInfo self) -> std::string"""
996  return _IMP_kernel.VersionInfo_get_version(self)
997 
998  def show(self, *args):
999  r"""show(VersionInfo self, _ostream out=std::cout)"""
1000  return _IMP_kernel.VersionInfo_show(self, *args)
1001 
1002  def __cmp__(self, o):
1003  r"""__cmp__(VersionInfo self, VersionInfo o) -> int"""
1004  return _IMP_kernel.VersionInfo___cmp__(self, o)
1005 
1006  def __eq__(self, o):
1007  r"""__eq__(VersionInfo self, VersionInfo o) -> bool"""
1008  return _IMP_kernel.VersionInfo___eq__(self, o)
1009 
1010  def __ne__(self, o):
1011  r"""__ne__(VersionInfo self, VersionInfo o) -> bool"""
1012  return _IMP_kernel.VersionInfo___ne__(self, o)
1013 
1014  def __lt__(self, o):
1015  r"""__lt__(VersionInfo self, VersionInfo o) -> bool"""
1016  return _IMP_kernel.VersionInfo___lt__(self, o)
1017 
1018  def __gt__(self, o):
1019  r"""__gt__(VersionInfo self, VersionInfo o) -> bool"""
1020  return _IMP_kernel.VersionInfo___gt__(self, o)
1021 
1022  def __ge__(self, o):
1023  r"""__ge__(VersionInfo self, VersionInfo o) -> bool"""
1024  return _IMP_kernel.VersionInfo___ge__(self, o)
1025 
1026  def __le__(self, o):
1027  r"""__le__(VersionInfo self, VersionInfo o) -> bool"""
1028  return _IMP_kernel.VersionInfo___le__(self, o)
1029 
1030  def __str__(self):
1031  r"""__str__(VersionInfo self) -> std::string"""
1032  return _IMP_kernel.VersionInfo___str__(self)
1033 
1034  def __repr__(self):
1035  r"""__repr__(VersionInfo self) -> std::string"""
1036  return _IMP_kernel.VersionInfo___repr__(self)
1037 
1038  def _get_as_binary(self):
1039  r"""_get_as_binary(VersionInfo self) -> PyObject *"""
1040  return _IMP_kernel.VersionInfo__get_as_binary(self)
1041 
1042  def _set_from_binary(self, p):
1043  r"""_set_from_binary(VersionInfo self, PyObject * p)"""
1044  return _IMP_kernel.VersionInfo__set_from_binary(self, p)
1045 
1046  def __getstate__(self):
1047  p = self._get_as_binary()
1048  if len(self.__dict__) > 1:
1049  d = self.__dict__.copy()
1050  del d['this']
1051  p = (d, p)
1052  return p
1053 
1054  def __setstate__(self, p):
1055  if not hasattr(self, 'this'):
1056  self.__init__()
1057  if isinstance(p, tuple):
1058  d, p = p
1059  self.__dict__.update(d)
1060  return self._set_from_binary(p)
1061 
1062  __swig_destroy__ = _IMP_kernel.delete_VersionInfo
1063 
1064 # Register VersionInfo in _IMP_kernel:
1065 _IMP_kernel.VersionInfo_swigregister(VersionInfo)
1066 class TextOutput(_InputAdaptor):
1067  r"""Proxy of C++ IMP::TextOutput class."""
1068 
1069  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1070  __repr__ = _swig_repr
1071 
1072  def __init__(self, *args):
1073  r"""
1074  __init__(TextOutput self, int arg2) -> TextOutput
1075  __init__(TextOutput self, double arg2) -> TextOutput
1076  __init__(TextOutput self, char const * c, bool append=False) -> TextOutput
1077  __init__(TextOutput self, IMP::TextProxy< std::ostream > p) -> TextOutput
1078  __init__(TextOutput self) -> TextOutput
1079  __init__(TextOutput self, std::string file_name, bool append=False) -> TextOutput
1080  """
1081  _IMP_kernel.TextOutput_swiginit(self, _IMP_kernel.new_TextOutput(*args))
1082 
1083  def show(self, *args):
1084  r"""show(TextOutput self, _ostream out=std::cout)"""
1085  return _IMP_kernel.TextOutput_show(self, *args)
1086 
1087  def get_name(self):
1088  r"""get_name(TextOutput self) -> std::string"""
1089  return _IMP_kernel.TextOutput_get_name(self)
1090  __swig_destroy__ = _IMP_kernel.delete_TextOutput
1091 
1092 # Register TextOutput in _IMP_kernel:
1093 _IMP_kernel.TextOutput_swigregister(TextOutput)
1094 class TextInput(_InputAdaptor):
1095  r"""Proxy of C++ IMP::TextInput class."""
1096 
1097  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1098  __repr__ = _swig_repr
1099 
1100  def __init__(self, *args):
1101  r"""
1102  __init__(TextInput self, int arg2) -> TextInput
1103  __init__(TextInput self, double arg2) -> TextInput
1104  __init__(TextInput self, char const * c) -> TextInput
1105  __init__(TextInput self, IMP::TextProxy< std::istream > p) -> TextInput
1106  __init__(TextInput self) -> TextInput
1107  __init__(TextInput self, std::string file_name) -> TextInput
1108  """
1109  _IMP_kernel.TextInput_swiginit(self, _IMP_kernel.new_TextInput(*args))
1110 
1111  def show(self, *args):
1112  r"""show(TextInput self, _ostream out=std::cout)"""
1113  return _IMP_kernel.TextInput_show(self, *args)
1114 
1115  def get_name(self):
1116  r"""get_name(TextInput self) -> std::string"""
1117  return _IMP_kernel.TextInput_get_name(self)
1118 
1119  def set_binary_open_mode(self, binary):
1120  r"""set_binary_open_mode(TextInput self, bool binary)"""
1121  return _IMP_kernel.TextInput_set_binary_open_mode(self, binary)
1122  __swig_destroy__ = _IMP_kernel.delete_TextInput
1123 
1124 # Register TextInput in _IMP_kernel:
1125 _IMP_kernel.TextInput_swigregister(TextInput)
1126 class SetLogTarget(_RAII):
1127  r"""Proxy of C++ IMP::SetLogTarget class."""
1128 
1129  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1130 
1131  def __init__(self, *args):
1132  r"""
1133  __init__(SetLogTarget self) -> SetLogTarget
1134  __init__(SetLogTarget self, TextOutput to) -> SetLogTarget
1135  """
1136  _IMP_kernel.SetLogTarget_swiginit(self, _IMP_kernel.new_SetLogTarget(*args))
1137 
1138  def set(self, to):
1139  r"""set(SetLogTarget self, TextOutput to)"""
1140  return _IMP_kernel.SetLogTarget_set(self, to)
1141 
1142  def reset(self):
1143  r"""reset(SetLogTarget self)"""
1144  return _IMP_kernel.SetLogTarget_reset(self)
1145  __swig_destroy__ = _IMP_kernel.delete_SetLogTarget
1146 
1147  def show(self, *args):
1148  r"""show(SetLogTarget self, _ostream out=std::cout)"""
1149  return _IMP_kernel.SetLogTarget_show(self, *args)
1150 
1151  def __enter__(self):
1152  return self
1153  def __exit__(self, exc_type, exc_val, exc_tb):
1154  self.reset()
1155  return False
1156 
1157 
1158  def __str__(self):
1159  r"""__str__(SetLogTarget self) -> std::string"""
1160  return _IMP_kernel.SetLogTarget___str__(self)
1161 
1162  def __repr__(self):
1163  r"""__repr__(SetLogTarget self) -> std::string"""
1164  return _IMP_kernel.SetLogTarget___repr__(self)
1165 
1166 # Register SetLogTarget in _IMP_kernel:
1167 _IMP_kernel.SetLogTarget_swigregister(SetLogTarget)
1168 
1169 def create_temporary_file(*args):
1170  r"""create_temporary_file(std::string prefix="imp_temp", std::string suffix="") -> TextOutput"""
1171  return _IMP_kernel.create_temporary_file(*args)
1172 
1173 def create_temporary_file_name(*args):
1174  r"""create_temporary_file_name(std::string prefix="imp_temp", std::string suffix="") -> std::string"""
1175  return _IMP_kernel.create_temporary_file_name(*args)
1176 
1177 def get_relative_path(base, relative):
1178  r"""get_relative_path(std::string base, std::string relative) -> std::string"""
1179  return _IMP_kernel.get_relative_path(base, relative)
1180 
1181 def get_absolute_path(file):
1182  r"""get_absolute_path(std::string file) -> std::string"""
1183  return _IMP_kernel.get_absolute_path(file)
1184 
1185 def push_log_context(functionname, object):
1186  r"""push_log_context(char const * functionname, void const * object)"""
1187  return _IMP_kernel.push_log_context(functionname, object)
1188 
1189 def pop_log_context():
1190  r"""pop_log_context()"""
1191  return _IMP_kernel.pop_log_context()
1192 
1193 def add_to_log(*args):
1194  r"""
1195  add_to_log(std::string to_write)
1196  add_to_log(IMP::LogLevel level, std::string to_write)
1197  """
1198  return _IMP_kernel.add_to_log(*args)
1199 
1200 def set_log_level(l):
1201  r"""set_log_level(IMP::LogLevel l)"""
1202  return _IMP_kernel.set_log_level(l)
1203 
1204 def set_log_timer(tb):
1205  r"""set_log_timer(bool tb)"""
1206  return _IMP_kernel.set_log_timer(tb)
1207 
1208 def reset_log_timer():
1209  r"""reset_log_timer()"""
1210  return _IMP_kernel.reset_log_timer()
1211 
1212 def get_log_level():
1213  r"""get_log_level() -> IMP::LogLevel"""
1214  return _IMP_kernel.get_log_level()
1215 
1216 def set_progress_display(description, steps):
1217  r"""set_progress_display(std::string description, unsigned int steps)"""
1218  return _IMP_kernel.set_progress_display(description, steps)
1219 
1220 def add_to_progress_display(step=1):
1221  r"""add_to_progress_display(unsigned int step=1)"""
1222  return _IMP_kernel.add_to_progress_display(step)
1223 class Object(_NonCopyable):
1224  r"""Proxy of C++ IMP::Object class."""
1225 
1226  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1227 
1228  def __init__(self, name):
1229  r"""__init__(Object self, std::string name) -> Object"""
1230  if self.__class__ == Object:
1231  _self = None
1232  else:
1233  _self = self
1234  _IMP_kernel.Object_swiginit(self, _IMP_kernel.new_Object(_self, name))
1235 
1236  if self.__class__ != Object:
1237  _director_objects.register(self)
1238 
1239 
1240 
1241  __swig_destroy__ = _IMP_kernel.delete_Object
1242 
1243  def __hash__(self):
1244  r"""__hash__(Object self) -> std::size_t"""
1245  return _IMP_kernel.Object___hash__(self)
1246 
1247  def set_log_level(self, l):
1248  r"""set_log_level(Object self, IMP::LogLevel l)"""
1249  return _IMP_kernel.Object_set_log_level(self, l)
1250 
1251  def set_check_level(self, l):
1252  r"""set_check_level(Object self, IMP::CheckLevel l)"""
1253  return _IMP_kernel.Object_set_check_level(self, l)
1254 
1255  def get_log_level(self):
1256  r"""get_log_level(Object self) -> IMP::LogLevel"""
1257  return _IMP_kernel.Object_get_log_level(self)
1258 
1259  def get_check_level(self):
1260  r"""get_check_level(Object self) -> IMP::CheckLevel"""
1261  return _IMP_kernel.Object_get_check_level(self)
1262 
1263  def get_version_info(self):
1264  r"""get_version_info(Object self) -> VersionInfo"""
1265  val = _IMP_kernel.Object_get_version_info(self)
1266  if val.get_module() == 'none':
1267  val = VersionInfo(
1268  self.__module__,
1269  __import__(self.__module__).get_module_version())
1270  return val
1271 
1272  def get_name(self):
1273  r"""get_name(Object self) -> std::string const &"""
1274  return _IMP_kernel.Object_get_name(self)
1275 
1276  def set_name(self, name):
1277  r"""set_name(Object self, std::string name)"""
1278  return _IMP_kernel.Object_set_name(self, name)
1279 
1280  def get_type_name(self):
1281  r"""get_type_name(Object self) -> std::string"""
1282  val = _IMP_kernel.Object_get_type_name(self)
1283  if val == 'unknown object type':
1284  val = self.__class__.__name__
1285  return val
1286 
1287  def set_was_used(self, tf):
1288  r"""set_was_used(Object self, bool tf)"""
1289  return _IMP_kernel.Object_set_was_used(self, tf)
1290 
1291  def show(self, *args):
1292  r"""show(Object self, _ostream out=std::cout)"""
1293  return _IMP_kernel.Object_show(self, *args)
1294 
1295  def get_string(self):
1296  r"""get_string(Object self) -> std::string"""
1297  return _IMP_kernel.Object_get_string(self)
1298 
1299  def _on_destruction(self):
1300  r"""_on_destruction(Object self)"""
1301  return _IMP_kernel.Object__on_destruction(self)
1302 
1303  def get_is_valid(self):
1304  r"""get_is_valid(Object self) -> bool"""
1305  return _IMP_kernel.Object_get_is_valid(self)
1306 
1307  def get_ref_count(self):
1308  r"""get_ref_count(Object self) -> unsigned int"""
1309  return _IMP_kernel.Object_get_ref_count(self)
1310 
1311  @staticmethod
1312  def get_number_of_live_objects():
1313  r"""get_number_of_live_objects() -> unsigned int"""
1314  return _IMP_kernel.Object_get_number_of_live_objects()
1315 
1316  def get_is_shared(self):
1317  r"""get_is_shared(Object self) -> bool"""
1318  return _IMP_kernel.Object_get_is_shared(self)
1319 
1320  def clear_caches(self):
1321  r"""clear_caches(Object self)"""
1322  return _IMP_kernel.Object_clear_caches(self)
1323 
1324  def do_destroy(self):
1325  r"""do_destroy(Object self)"""
1326  return _IMP_kernel.Object_do_destroy(self)
1327 
1328  def __getstate__(self):
1329  raise NotImplementedError(str(self.__class__)
1330  + " does not support serialization")
1331 
1332 
1333  def __eq__(self, o):
1334  r"""__eq__(Object self, Object o) -> bool"""
1335  return _IMP_kernel.Object___eq__(self, o)
1336 
1337  def __ne__(self, o):
1338  r"""__ne__(Object self, Object o) -> bool"""
1339  return _IMP_kernel.Object___ne__(self, o)
1340 
1341  def __le__(self, o):
1342  r"""__le__(Object self, Object o) -> bool"""
1343  return _IMP_kernel.Object___le__(self, o)
1344 
1345  def __lt__(self, o):
1346  r"""__lt__(Object self, Object o) -> bool"""
1347  return _IMP_kernel.Object___lt__(self, o)
1348 
1349  def __ge__(self, o):
1350  r"""__ge__(Object self, Object o) -> bool"""
1351  return _IMP_kernel.Object___ge__(self, o)
1352 
1353  def __gt__(self, o):
1354  r"""__gt__(Object self, Object o) -> bool"""
1355  return _IMP_kernel.Object___gt__(self, o)
1356 
1357  def _get_director_object(self):
1358  r"""_get_director_object(Object self) -> PyObject *"""
1359  return _IMP_kernel.Object__get_director_object(self)
1360 
1362  """Return this object cast to the most derived subclass."""
1363  # If this is a SWIG director, return the original Python object
1364  pyobj = self._get_director_object()
1365  if pyobj is not None:
1366  return pyobj
1367  # Otherwise, use the object's module and type name to look up
1368  # the corresponding most-derived Python type
1369  modname = self.get_version_info().get_module().replace('::', '.')
1370  type_name = self.get_type_name()
1371  if (modname == 'IMP.core'
1372  and type_name == 'GenericBoundingBox3DSingletonScore'):
1373  type_name = 'BoundingBox3DSingletonScore'
1374  elif (modname == 'IMP.core'
1375  and type_name == 'GenericAttributeSingletonScore'):
1376  type_name = 'AttributeSingletonScore'
1377  elif (modname == 'IMP.core'
1378  and type_name == 'GenericBoundingSphere3DSingletonScore'):
1379  type_name = 'BoundingSphere3DSingletonScore'
1380  elif modname == 'IMP' and type_name == 'RestraintScoringFunction':
1381  # The implicit RestraintScoringFunction isn't exposed to Python,
1382  # so just return the base class
1383  return self
1384  elif modname == 'IMP' and type_name == 'GenericRestraintsScoringFunction':
1385  type_name = '_RestraintsScoringFunction'
1386  modobj = sys.modules[modname]
1387  clsobj = getattr(modobj, type_name)
1388  return clsobj.get_from(self)
1389 
1390 
1391  def __str__(self):
1392  r"""__str__(Object self) -> std::string"""
1393  return _IMP_kernel.Object___str__(self)
1394 
1395  def __repr__(self):
1396  r"""__repr__(Object self) -> std::string"""
1397  return _IMP_kernel.Object___repr__(self)
1398 
1399  @staticmethod
1400  def get_from(o):
1401  return _object_cast_to_Object(o)
1402 
1403  def __disown__(self):
1404  self.this.disown()
1405  _IMP_kernel.disown_Object(self)
1406  return weakref.proxy(self)
1407 
1408 # Register Object in _IMP_kernel:
1409 _IMP_kernel.Object_swigregister(Object)
1410 class SetLogState(_RAII):
1411  r"""Proxy of C++ IMP::SetLogState class."""
1412 
1413  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1414 
1415  def reset(self):
1416  r"""reset(SetLogState self)"""
1417  return _IMP_kernel.SetLogState_reset(self)
1418  __swig_destroy__ = _IMP_kernel.delete_SetLogState
1419 
1420  def show(self, *args):
1421  r"""show(SetLogState self, _ostream out=std::cout)"""
1422  return _IMP_kernel.SetLogState_show(self, *args)
1423 
1424  def __init__(self, *args):
1425  r"""
1426  __init__(SetLogState self) -> SetLogState
1427  __init__(SetLogState self, Object o, IMP::LogLevel l) -> SetLogState
1428  __init__(SetLogState self, IMP::LogLevel l) -> SetLogState
1429  """
1430  _IMP_kernel.SetLogState_swiginit(self, _IMP_kernel.new_SetLogState(*args))
1431 
1432  def set(self, *args):
1433  r"""
1434  set(SetLogState self, Object o, IMP::LogLevel l)
1435  set(SetLogState self, IMP::LogLevel l)
1436  """
1437  return _IMP_kernel.SetLogState_set(self, *args)
1438 
1439  def __enter__(self):
1440  return self
1441  def __exit__(self, exc_type, exc_val, exc_tb):
1442  self.reset()
1443  return False
1444 
1445 
1446  def __str__(self):
1447  r"""__str__(SetLogState self) -> std::string"""
1448  return _IMP_kernel.SetLogState___str__(self)
1449 
1450  def __repr__(self):
1451  r"""__repr__(SetLogState self) -> std::string"""
1452  return _IMP_kernel.SetLogState___repr__(self)
1453 
1454 # Register SetLogState in _IMP_kernel:
1455 _IMP_kernel.SetLogState_swigregister(SetLogState)
1456 class WarningContext(object):
1457  r"""Proxy of C++ IMP::WarningContext class."""
1458 
1459  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1460  data_ = property(_IMP_kernel.WarningContext_data__get, _IMP_kernel.WarningContext_data__set, doc=r"""data_ : boost::unordered_set<(std::string)>""")
1461 
1462  def add_warning(self, key, warning):
1463  r"""add_warning(WarningContext self, std::string key, std::string warning)"""
1464  return _IMP_kernel.WarningContext_add_warning(self, key, warning)
1465 
1466  def clear_warnings(self):
1467  r"""clear_warnings(WarningContext self)"""
1468  return _IMP_kernel.WarningContext_clear_warnings(self)
1469 
1470  def dump_warnings(self):
1471  r"""dump_warnings(WarningContext self)"""
1472  return _IMP_kernel.WarningContext_dump_warnings(self)
1473  __swig_destroy__ = _IMP_kernel.delete_WarningContext
1474 
1475  def show(self, *args):
1476  r"""show(WarningContext self, _ostream out=std::cout)"""
1477  return _IMP_kernel.WarningContext_show(self, *args)
1478 
1479  def __enter__(self):
1480  return self
1481  def __exit__(self, exc_type, exc_val, exc_tb):
1482  self.reset()
1483  return False
1484 
1485 
1486  def __str__(self):
1487  r"""__str__(WarningContext self) -> std::string"""
1488  return _IMP_kernel.WarningContext___str__(self)
1489 
1490  def __repr__(self):
1491  r"""__repr__(WarningContext self) -> std::string"""
1492  return _IMP_kernel.WarningContext___repr__(self)
1493 
1494  def __init__(self):
1495  r"""__init__(WarningContext self) -> WarningContext"""
1496  _IMP_kernel.WarningContext_swiginit(self, _IMP_kernel.new_WarningContext())
1497 
1498 # Register WarningContext in _IMP_kernel:
1499 _IMP_kernel.WarningContext_swigregister(WarningContext)
1500 class CreateLogContext(_RAII):
1501  r"""Proxy of C++ IMP::CreateLogContext class."""
1502 
1503  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1504 
1505  def __init__(self, *args):
1506  r"""
1507  __init__(CreateLogContext self, std::string fname, Object object=None) -> CreateLogContext
1508  __init__(CreateLogContext self) -> CreateLogContext
1509  __init__(CreateLogContext self, char const * fname, Object object=None) -> CreateLogContext
1510  """
1511  _IMP_kernel.CreateLogContext_swiginit(self, _IMP_kernel.new_CreateLogContext(*args))
1512 
1513  def set(self, fname, object=None):
1514  r"""set(CreateLogContext self, char const * fname, Object object=None)"""
1515  return _IMP_kernel.CreateLogContext_set(self, fname, object)
1516 
1517  def reset(self):
1518  r"""reset(CreateLogContext self)"""
1519  return _IMP_kernel.CreateLogContext_reset(self)
1520  __swig_destroy__ = _IMP_kernel.delete_CreateLogContext
1521 
1522  def show(self, *args):
1523  r"""show(CreateLogContext self, _ostream out=std::cout)"""
1524  return _IMP_kernel.CreateLogContext_show(self, *args)
1525 
1526  def __enter__(self):
1527  return self
1528  def __exit__(self, exc_type, exc_val, exc_tb):
1529  self.reset()
1530  return False
1531 
1532 
1533  def __str__(self):
1534  r"""__str__(CreateLogContext self) -> std::string"""
1535  return _IMP_kernel.CreateLogContext___str__(self)
1536 
1537  def __repr__(self):
1538  r"""__repr__(CreateLogContext self) -> std::string"""
1539  return _IMP_kernel.CreateLogContext___repr__(self)
1540 
1541 # Register CreateLogContext in _IMP_kernel:
1542 _IMP_kernel.CreateLogContext_swigregister(CreateLogContext)
1543 class SetCheckState(_RAII):
1544  r"""Proxy of C++ IMP::SetCheckState class."""
1545 
1546  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1547 
1548  def reset(self):
1549  r"""reset(SetCheckState self)"""
1550  return _IMP_kernel.SetCheckState_reset(self)
1551  __swig_destroy__ = _IMP_kernel.delete_SetCheckState
1552 
1553  def show(self, *args):
1554  r"""show(SetCheckState self, _ostream out=std::cout)"""
1555  return _IMP_kernel.SetCheckState_show(self, *args)
1556 
1557  def __init__(self, *args):
1558  r"""
1559  __init__(SetCheckState self) -> SetCheckState
1560  __init__(SetCheckState self, Object o, IMP::CheckLevel l) -> SetCheckState
1561  __init__(SetCheckState self, IMP::CheckLevel l) -> SetCheckState
1562  """
1563  _IMP_kernel.SetCheckState_swiginit(self, _IMP_kernel.new_SetCheckState(*args))
1564 
1565  def set(self, *args):
1566  r"""
1567  set(SetCheckState self, Object o, IMP::CheckLevel l)
1568  set(SetCheckState self, IMP::CheckLevel l)
1569  """
1570  return _IMP_kernel.SetCheckState_set(self, *args)
1571 
1572  def __enter__(self):
1573  return self
1574  def __exit__(self, exc_type, exc_val, exc_tb):
1575  self.reset()
1576  return False
1577 
1578 
1579  def __str__(self):
1580  r"""__str__(SetCheckState self) -> std::string"""
1581  return _IMP_kernel.SetCheckState___str__(self)
1582 
1583  def __repr__(self):
1584  r"""__repr__(SetCheckState self) -> std::string"""
1585  return _IMP_kernel.SetCheckState___repr__(self)
1586 
1587 # Register SetCheckState in _IMP_kernel:
1588 _IMP_kernel.SetCheckState_swigregister(SetCheckState)
1589 
1590 def get_unique_name(templ):
1591  r"""get_unique_name(std::string templ) -> std::string"""
1592  return _IMP_kernel.get_unique_name(templ)
1593 
1594 def get_copyright():
1595  r"""get_copyright() -> std::string"""
1596  return _IMP_kernel.get_copyright()
1597 class _Protection(object):
1598  r"""Proxy of C++ IMP::internal::_Protection class."""
1599 
1600  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1601 
1602  def __init__(self, *args, **kwargs):
1603  raise AttributeError("No constructor defined")
1604 
1605  def show(self, *args):
1606  r"""show(_Protection self, _ostream out=std::cout)"""
1607  return _IMP_kernel._Protection_show(self, *args)
1608 
1609  def __str__(self):
1610  r"""__str__(_Protection self) -> std::string"""
1611  return _IMP_kernel._Protection___str__(self)
1612 
1613  def __repr__(self):
1614  r"""__repr__(_Protection self) -> std::string"""
1615  return _IMP_kernel._Protection___repr__(self)
1616  __swig_destroy__ = _IMP_kernel.delete__Protection
1617 
1618 # Register _Protection in _IMP_kernel:
1619 _IMP_kernel._Protection_swigregister(_Protection)
1620 
1621 def _test_log():
1622  r"""_test_log()"""
1623  return _IMP_kernel._test_log()
1624 
1625 def _test_intranges(ips):
1626  r"""_test_intranges(IMP::IntRanges const & ips) -> int"""
1627  return _IMP_kernel._test_intranges(ips)
1628 
1629 def _test_intrange(*args):
1630  r"""
1631  _test_intrange(IMP::IntRange const & ips) -> IMP::IntRange
1632  _test_intrange() -> IMP::IntRange
1633  """
1634  return _IMP_kernel._test_intrange(*args)
1635 
1636 def _test_ifile(a):
1637  r"""_test_ifile(TextInput a) -> std::string"""
1638  return _IMP_kernel._test_ifile(a)
1639 
1640 def _test_ofile(a):
1641  r"""_test_ofile(TextOutput a) -> std::string"""
1642  return _IMP_kernel._test_ofile(a)
1643 
1644 def _test_ifile_overloaded(*args):
1645  r"""
1646  _test_ifile_overloaded(TextInput a, int i) -> std::string
1647  _test_ifile_overloaded(TextInput a, std::string st) -> std::string
1648  """
1649  return _IMP_kernel._test_ifile_overloaded(*args)
1650 
1651 def _test_ofile_overloaded(*args):
1652  r"""
1653  _test_ofile_overloaded(TextOutput a, int i) -> std::string
1654  _test_ofile_overloaded(TextOutput a, std::string st) -> std::string
1655  """
1656  return _IMP_kernel._test_ofile_overloaded(*args)
1657 class _TestValue(object):
1658  r"""Proxy of C++ IMP::internal::_TestValue class."""
1659 
1660  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1661 
1662  def __init__(self, i):
1663  r"""__init__(_TestValue self, int i) -> _TestValue"""
1664  _IMP_kernel._TestValue_swiginit(self, _IMP_kernel.new__TestValue(i))
1665 
1666  def show(self, *args):
1667  r"""show(_TestValue self, _ostream out=std::cout)"""
1668  return _IMP_kernel._TestValue_show(self, *args)
1669 
1670  def __cmp__(self, o):
1671  r"""__cmp__(_TestValue self, _TestValue o) -> int"""
1672  return _IMP_kernel._TestValue___cmp__(self, o)
1673 
1674  def __eq__(self, o):
1675  r"""__eq__(_TestValue self, _TestValue o) -> bool"""
1676  return _IMP_kernel._TestValue___eq__(self, o)
1677 
1678  def __ne__(self, o):
1679  r"""__ne__(_TestValue self, _TestValue o) -> bool"""
1680  return _IMP_kernel._TestValue___ne__(self, o)
1681 
1682  def __lt__(self, o):
1683  r"""__lt__(_TestValue self, _TestValue o) -> bool"""
1684  return _IMP_kernel._TestValue___lt__(self, o)
1685 
1686  def __gt__(self, o):
1687  r"""__gt__(_TestValue self, _TestValue o) -> bool"""
1688  return _IMP_kernel._TestValue___gt__(self, o)
1689 
1690  def __ge__(self, o):
1691  r"""__ge__(_TestValue self, _TestValue o) -> bool"""
1692  return _IMP_kernel._TestValue___ge__(self, o)
1693 
1694  def __le__(self, o):
1695  r"""__le__(_TestValue self, _TestValue o) -> bool"""
1696  return _IMP_kernel._TestValue___le__(self, o)
1697 
1698  def get(self):
1699  r"""get(_TestValue self) -> int"""
1700  return _IMP_kernel._TestValue_get(self)
1701 
1702  def get_float(self):
1703  r"""get_float(_TestValue self) -> float const &"""
1704  return _IMP_kernel._TestValue_get_float(self)
1705 
1706  def get_double(self):
1707  r"""get_double(_TestValue self) -> double const &"""
1708  return _IMP_kernel._TestValue_get_double(self)
1709 
1710  def get_Float(self):
1711  r"""get_Float(_TestValue self) -> IMP::Float const &"""
1712  return _IMP_kernel._TestValue_get_Float(self)
1713 
1714  def get_int(self):
1715  r"""get_int(_TestValue self) -> int const &"""
1716  return _IMP_kernel._TestValue_get_int(self)
1717 
1718  def get_Int(self):
1719  r"""get_Int(_TestValue self) -> IMP::Int const &"""
1720  return _IMP_kernel._TestValue_get_Int(self)
1721 
1722  def get_string(self):
1723  r"""get_string(_TestValue self) -> std::string const &"""
1724  return _IMP_kernel._TestValue_get_string(self)
1725 
1726  def get_String(self):
1727  r"""get_String(_TestValue self) -> IMP::String const &"""
1728  return _IMP_kernel._TestValue_get_String(self)
1729 
1730  def __str__(self):
1731  r"""__str__(_TestValue self) -> std::string"""
1732  return _IMP_kernel._TestValue___str__(self)
1733 
1734  def __repr__(self):
1735  r"""__repr__(_TestValue self) -> std::string"""
1736  return _IMP_kernel._TestValue___repr__(self)
1737  __swig_destroy__ = _IMP_kernel.delete__TestValue
1738 
1739 # Register _TestValue in _IMP_kernel:
1740 _IMP_kernel._TestValue_swigregister(_TestValue)
1741 
1742 def _pass_plain_pair(p):
1743  r"""_pass_plain_pair(IMP::FloatPair p) -> IMP::FloatPair"""
1744  return _IMP_kernel._pass_plain_pair(p)
1745 
1746 def _pass_overloaded_strings(*args):
1747  r"""
1748  _pass_overloaded_strings(IMP::Strings const & a, int arg2) -> IMP::Strings
1749  _pass_overloaded_strings(IMP::Strings const & a) -> IMP::Strings
1750  """
1751  return _IMP_kernel._pass_overloaded_strings(*args)
1752 
1753 def _pass_pair(p):
1754  r"""_pass_pair(IMP::DerivativePair const & p) -> IMP::DerivativePair"""
1755  return _IMP_kernel._pass_pair(p)
1756 
1757 def _pass_floats(input):
1758  r"""_pass_floats(IMP::Floats const & input) -> IMP::Floats"""
1759  return _IMP_kernel._pass_floats(input)
1760 
1761 def _pass_ints(input):
1762  r"""_pass_ints(IMP::Ints input) -> IMP::Ints"""
1763  return _IMP_kernel._pass_ints(input)
1764 
1765 def _pass_ints_list(input):
1766  r"""_pass_ints_list(IMP::IntsList const & input) -> IMP::IntsList"""
1767  return _IMP_kernel._pass_ints_list(input)
1768 
1769 def _pass_ints_lists(input):
1770  r"""_pass_ints_lists(IMP::IntsLists const & input) -> IMP::IntsLists"""
1771  return _IMP_kernel._pass_ints_lists(input)
1772 
1773 def _pass_strings(input):
1774  r"""_pass_strings(IMP::Strings const & input) -> IMP::Strings const &"""
1775  return _IMP_kernel._pass_strings(input)
1776 class _TestObject(Object):
1777  r"""Proxy of C++ IMP::internal::_TestObject class."""
1778 
1779  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1780 
1781  def __init__(self):
1782  r"""__init__(_TestObject self) -> _TestObject"""
1783  _IMP_kernel._TestObject_swiginit(self, _IMP_kernel.new__TestObject())
1784 
1785  def get_version_info(self):
1786  r"""get_version_info(_TestObject self) -> VersionInfo"""
1787  return _IMP_kernel._TestObject_get_version_info(self)
1788  __swig_destroy__ = _IMP_kernel.delete__TestObject
1789 
1790  def __str__(self):
1791  r"""__str__(_TestObject self) -> std::string"""
1792  return _IMP_kernel._TestObject___str__(self)
1793 
1794  def __repr__(self):
1795  r"""__repr__(_TestObject self) -> std::string"""
1796  return _IMP_kernel._TestObject___repr__(self)
1797 
1798  @staticmethod
1799  def get_from(o):
1800  return _object_cast_to__TestObject(o)
1801 
1802 
1803 # Register _TestObject in _IMP_kernel:
1804 _IMP_kernel._TestObject_swigregister(_TestObject)
1805 
1806 def get_live_object_names():
1807  r"""get_live_object_names() -> IMP::Strings"""
1808  return _IMP_kernel.get_live_object_names()
1809 
1810 def get_live_objects():
1811  r"""get_live_objects() -> IMP::Objects"""
1812  return _IMP_kernel.get_live_objects()
1813 
1814 def set_show_leaked_objects(tf):
1815  r"""set_show_leaked_objects(bool tf)"""
1816  return _IMP_kernel.set_show_leaked_objects(tf)
1817 
1818 def set_deprecation_warnings(tf):
1819  r"""set_deprecation_warnings(bool tf)"""
1820  return _IMP_kernel.set_deprecation_warnings(tf)
1821 
1823  r"""set_deprecation_exceptions(bool tf)"""
1824  return _IMP_kernel.set_deprecation_exceptions(tf)
1825 
1827  r"""get_deprecation_exceptions() -> bool"""
1828  return _IMP_kernel.get_deprecation_exceptions()
1829 
1830 def handle_use_deprecated(message):
1831  r"""handle_use_deprecated(std::string message)"""
1832  return _IMP_kernel.handle_use_deprecated(message)
1833 
1834 def get_number_of_threads():
1835  r"""get_number_of_threads() -> unsigned int"""
1836  return _IMP_kernel.get_number_of_threads()
1837 
1838 def set_number_of_threads(n):
1839  r"""set_number_of_threads(unsigned int n)"""
1840  return _IMP_kernel.set_number_of_threads(n)
1841 class SetNumberOfThreads(_RAII):
1842  r"""Proxy of C++ IMP::SetNumberOfThreads class."""
1843 
1844  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1845 
1846  def __init__(self, *args):
1847  r"""
1848  __init__(SetNumberOfThreads self) -> SetNumberOfThreads
1849  __init__(SetNumberOfThreads self, unsigned int n) -> SetNumberOfThreads
1850  """
1851  _IMP_kernel.SetNumberOfThreads_swiginit(self, _IMP_kernel.new_SetNumberOfThreads(*args))
1852 
1853  def set(self, n):
1854  r"""set(SetNumberOfThreads self, unsigned int n)"""
1855  return _IMP_kernel.SetNumberOfThreads_set(self, n)
1856 
1857  def reset(self):
1858  r"""reset(SetNumberOfThreads self)"""
1859  return _IMP_kernel.SetNumberOfThreads_reset(self)
1860  __swig_destroy__ = _IMP_kernel.delete_SetNumberOfThreads
1861 
1862  def show(self, *args):
1863  r"""show(SetNumberOfThreads self, _ostream out=std::cout)"""
1864  return _IMP_kernel.SetNumberOfThreads_show(self, *args)
1865 
1866  def __enter__(self):
1867  return self
1868  def __exit__(self, exc_type, exc_val, exc_tb):
1869  self.reset()
1870  return False
1871 
1872 
1873  def __str__(self):
1874  r"""__str__(SetNumberOfThreads self) -> std::string"""
1875  return _IMP_kernel.SetNumberOfThreads___str__(self)
1876 
1877  def __repr__(self):
1878  r"""__repr__(SetNumberOfThreads self) -> std::string"""
1879  return _IMP_kernel.SetNumberOfThreads___repr__(self)
1880 
1881 # Register SetNumberOfThreads in _IMP_kernel:
1882 _IMP_kernel.SetNumberOfThreads_swigregister(SetNumberOfThreads)
1883 
1884 import os
1885 i_m_p="IMP_MODULE_PATH"
1886 if i_m_p in os.environ.keys():
1887  __path__.insert(0, os.environ[i_m_p])
1888 
1889 def _forward_add_attribute(self, name, value, opt=None):
1890  if opt is not None:
1891  self.get_particle().add_attribute(name, value, opt)
1892  else:
1893  self.get_particle().add_attribute(name, value)
1894 def _forward_get_value(self, name):
1895  self.get_particle().get_value(name)
1896 def _forward_set_value(self, name, value):
1897  self.get_particle().set_value(name, value)
1898 
1899 
1900 build="release"
1901 
1902 
1903 _object_types.append("Constraint")
1904 
1905 
1906 def _object_cast_to_Constraint(o):
1907  r"""_object_cast_to_Constraint(Object o) -> Constraint"""
1908  return _IMP_kernel._object_cast_to_Constraint(o)
1909 
1910 _object_types.append("Undecorator")
1911 
1912 
1913 def _object_cast_to_Undecorator(o):
1914  r"""_object_cast_to_Undecorator(Object o) -> Undecorator"""
1915  return _IMP_kernel._object_cast_to_Undecorator(o)
1916 
1917 _object_types.append("Container")
1918 
1919 
1920 def _object_cast_to_Container(o):
1921  r"""_object_cast_to_Container(Object o) -> Container"""
1922  return _IMP_kernel._object_cast_to_Container(o)
1923 
1924 _object_types.append("Optimizer")
1925 
1926 
1927 def _object_cast_to_Optimizer(o):
1928  r"""_object_cast_to_Optimizer(Object o) -> Optimizer"""
1929  return _IMP_kernel._object_cast_to_Optimizer(o)
1930 
1931 _object_types.append("AttributeOptimizer")
1932 
1933 
1934 def _object_cast_to_AttributeOptimizer(o):
1935  r"""_object_cast_to_AttributeOptimizer(Object o) -> AttributeOptimizer"""
1936  return _IMP_kernel._object_cast_to_AttributeOptimizer(o)
1937 
1938 _object_types.append("OptimizerState")
1939 
1940 
1941 def _object_cast_to_OptimizerState(o):
1942  r"""_object_cast_to_OptimizerState(Object o) -> OptimizerState"""
1943  return _IMP_kernel._object_cast_to_OptimizerState(o)
1944 
1945 _object_types.append("PairContainer")
1946 
1947 
1948 def _object_cast_to_PairContainer(o):
1949  r"""_object_cast_to_PairContainer(Object o) -> PairContainer"""
1950  return _IMP_kernel._object_cast_to_PairContainer(o)
1951 
1952 _object_types.append("PairModifier")
1953 
1954 
1955 def _object_cast_to_PairModifier(o):
1956  r"""_object_cast_to_PairModifier(Object o) -> PairModifier"""
1957  return _IMP_kernel._object_cast_to_PairModifier(o)
1958 
1959 _object_types.append("PairScore")
1960 
1961 
1962 def _object_cast_to_PairScore(o):
1963  r"""_object_cast_to_PairScore(Object o) -> PairScore"""
1964  return _IMP_kernel._object_cast_to_PairScore(o)
1965 
1966 _object_types.append("QuadContainer")
1967 
1968 
1969 def _object_cast_to_QuadContainer(o):
1970  r"""_object_cast_to_QuadContainer(Object o) -> QuadContainer"""
1971  return _IMP_kernel._object_cast_to_QuadContainer(o)
1972 
1973 _object_types.append("QuadModifier")
1974 
1975 
1976 def _object_cast_to_QuadModifier(o):
1977  r"""_object_cast_to_QuadModifier(Object o) -> QuadModifier"""
1978  return _IMP_kernel._object_cast_to_QuadModifier(o)
1979 
1980 _object_types.append("QuadScore")
1981 
1982 
1983 def _object_cast_to_QuadScore(o):
1984  r"""_object_cast_to_QuadScore(Object o) -> QuadScore"""
1985  return _IMP_kernel._object_cast_to_QuadScore(o)
1986 
1987 _object_types.append("Refiner")
1988 
1989 
1990 def _object_cast_to_Refiner(o):
1991  r"""_object_cast_to_Refiner(Object o) -> Refiner"""
1992  return _IMP_kernel._object_cast_to_Refiner(o)
1993 
1994 _object_types.append("Restraint")
1995 
1996 
1997 def _object_cast_to_Restraint(o):
1998  r"""_object_cast_to_Restraint(Object o) -> Restraint"""
1999  return _IMP_kernel._object_cast_to_Restraint(o)
2000 
2001 _object_types.append("Sampler")
2002 
2003 
2004 def _object_cast_to_Sampler(o):
2005  r"""_object_cast_to_Sampler(Object o) -> Sampler"""
2006  return _IMP_kernel._object_cast_to_Sampler(o)
2007 
2008 _object_types.append("ScoreState")
2009 
2010 
2011 def _object_cast_to_ScoreState(o):
2012  r"""_object_cast_to_ScoreState(Object o) -> ScoreState"""
2013  return _IMP_kernel._object_cast_to_ScoreState(o)
2014 
2015 _object_types.append("SingletonContainer")
2016 
2017 
2018 def _object_cast_to_SingletonContainer(o):
2019  r"""_object_cast_to_SingletonContainer(Object o) -> SingletonContainer"""
2020  return _IMP_kernel._object_cast_to_SingletonContainer(o)
2021 
2022 _object_types.append("SingletonModifier")
2023 
2024 
2025 def _object_cast_to_SingletonModifier(o):
2026  r"""_object_cast_to_SingletonModifier(Object o) -> SingletonModifier"""
2027  return _IMP_kernel._object_cast_to_SingletonModifier(o)
2028 
2029 _object_types.append("SingletonScore")
2030 
2031 
2032 def _object_cast_to_SingletonScore(o):
2033  r"""_object_cast_to_SingletonScore(Object o) -> SingletonScore"""
2034  return _IMP_kernel._object_cast_to_SingletonScore(o)
2035 
2036 _object_types.append("TripletContainer")
2037 
2038 
2039 def _object_cast_to_TripletContainer(o):
2040  r"""_object_cast_to_TripletContainer(Object o) -> TripletContainer"""
2041  return _IMP_kernel._object_cast_to_TripletContainer(o)
2042 
2043 _object_types.append("TripletModifier")
2044 
2045 
2046 def _object_cast_to_TripletModifier(o):
2047  r"""_object_cast_to_TripletModifier(Object o) -> TripletModifier"""
2048  return _IMP_kernel._object_cast_to_TripletModifier(o)
2049 
2050 _object_types.append("TripletScore")
2051 
2052 
2053 def _object_cast_to_TripletScore(o):
2054  r"""_object_cast_to_TripletScore(Object o) -> TripletScore"""
2055  return _IMP_kernel._object_cast_to_TripletScore(o)
2056 
2057 _object_types.append("UnaryFunction")
2058 
2059 
2060 def _object_cast_to_UnaryFunction(o):
2061  r"""_object_cast_to_UnaryFunction(Object o) -> UnaryFunction"""
2062  return _IMP_kernel._object_cast_to_UnaryFunction(o)
2063 
2064 _object_types.append("RestraintInfo")
2065 
2066 
2067 def _object_cast_to_RestraintInfo(o):
2068  r"""_object_cast_to_RestraintInfo(Object o) -> RestraintInfo"""
2069  return _IMP_kernel._object_cast_to_RestraintInfo(o)
2070 
2071 _object_types.append("ConfigurationSet")
2072 
2073 
2074 def _object_cast_to_ConfigurationSet(o):
2075  r"""_object_cast_to_ConfigurationSet(Object o) -> ConfigurationSet"""
2076  return _IMP_kernel._object_cast_to_ConfigurationSet(o)
2077 
2078 _object_types.append("Configuration")
2079 
2080 
2081 def _object_cast_to_Configuration(o):
2082  r"""_object_cast_to_Configuration(Object o) -> Configuration"""
2083  return _IMP_kernel._object_cast_to_Configuration(o)
2084 
2085 _object_types.append("Model")
2086 
2087 
2088 def _object_cast_to_Model(o):
2089  r"""_object_cast_to_Model(Object o) -> Model"""
2090  return _IMP_kernel._object_cast_to_Model(o)
2091 
2092 _object_types.append("Particle")
2093 
2094 
2095 def _object_cast_to_Particle(o):
2096  r"""_object_cast_to_Particle(Object o) -> Particle"""
2097  return _IMP_kernel._object_cast_to_Particle(o)
2098 
2099 _object_types.append("RestraintSet")
2100 
2101 
2102 def _object_cast_to_RestraintSet(o):
2103  r"""_object_cast_to_RestraintSet(Object o) -> RestraintSet"""
2104  return _IMP_kernel._object_cast_to_RestraintSet(o)
2105 
2106 ParticlePairsTemp=list
2107 _plural_types.append("ParticlePairsTemp")
2108 _value_types.append("ParticlePair")
2109 
2110 
2111 ParticleTripletsTemp=list
2112 _plural_types.append("ParticleTripletsTemp")
2113 _value_types.append("ParticleTriplet")
2114 
2115 
2116 ParticleQuadsTemp=list
2117 _plural_types.append("ParticleQuadsTemp")
2118 _value_types.append("ParticleQuad")
2119 
2120 
2121 ParticleIndexPairs=list
2122 _plural_types.append("ParticleIndexPairs")
2123 _value_types.append("ParticleIndexPair")
2124 
2125 
2126 ParticleIndexTriplets=list
2127 _plural_types.append("ParticleIndexTriplets")
2128 _value_types.append("ParticleIndexTriplet")
2129 
2130 
2131 ParticleIndexQuads=list
2132 _plural_types.append("ParticleIndexQuads")
2133 _value_types.append("ParticleIndexQuad")
2134 
2135 
2136 _object_types.append("SingletonPredicate")
2137 
2138 
2139 def _object_cast_to_SingletonPredicate(o):
2140  r"""_object_cast_to_SingletonPredicate(Object o) -> SingletonPredicate"""
2141  return _IMP_kernel._object_cast_to_SingletonPredicate(o)
2142 
2143 _object_types.append("PairPredicate")
2144 
2145 
2146 def _object_cast_to_PairPredicate(o):
2147  r"""_object_cast_to_PairPredicate(Object o) -> PairPredicate"""
2148  return _IMP_kernel._object_cast_to_PairPredicate(o)
2149 
2150 _object_types.append("TripletPredicate")
2151 
2152 
2153 def _object_cast_to_TripletPredicate(o):
2154  r"""_object_cast_to_TripletPredicate(Object o) -> TripletPredicate"""
2155  return _IMP_kernel._object_cast_to_TripletPredicate(o)
2156 
2157 _object_types.append("QuadPredicate")
2158 
2159 
2160 def _object_cast_to_QuadPredicate(o):
2161  r"""_object_cast_to_QuadPredicate(Object o) -> QuadPredicate"""
2162  return _IMP_kernel._object_cast_to_QuadPredicate(o)
2163 
2164 _object_types.append("SaveToConfigurationSetOptimizerState")
2165 
2166 
2167 def _object_cast_to_SaveToConfigurationSetOptimizerState(o):
2168  r"""_object_cast_to_SaveToConfigurationSetOptimizerState(Object o) -> SaveToConfigurationSetOptimizerState"""
2169  return _IMP_kernel._object_cast_to_SaveToConfigurationSetOptimizerState(o)
2170 
2171 EvaluationStates=list
2172 _plural_types.append("EvaluationStates")
2173 _value_types.append("EvaluationState")
2174 
2175 
2176 ScoreAccumulators=list
2177 _plural_types.append("ScoreAccumulators")
2178 _value_types.append("ScoreAccumulator")
2179 
2180 
2181 ParticleIndexes=list
2182 _plural_types.append("ParticleIndexes")
2183 _value_types.append("ParticleIndex")
2184 
2185 
2186 FloatIndexes=list
2187 _plural_types.append("FloatIndexes")
2188 _value_types.append("FloatIndex")
2189 
2190 
2191 FloatKeys=list
2192 _plural_types.append("FloatKeys")
2193 _value_types.append("FloatKey")
2194 
2195 
2196 FloatsKeys=list
2197 _plural_types.append("FloatsKeys")
2198 _value_types.append("FloatsKey")
2199 
2200 
2201 IntKeys=list
2202 _plural_types.append("IntKeys")
2203 _value_types.append("IntKey")
2204 
2205 
2206 IntsKeys=list
2207 _plural_types.append("IntsKeys")
2208 _value_types.append("IntsKey")
2209 
2210 
2211 StringKeys=list
2212 _plural_types.append("StringKeys")
2213 _value_types.append("StringKey")
2214 
2215 
2216 ParticleIndexKeys=list
2217 _plural_types.append("ParticleIndexKeys")
2218 _value_types.append("ParticleIndexKey")
2219 
2220 
2221 ParticleIndexesKeys=list
2222 _plural_types.append("ParticleIndexesKeys")
2223 _value_types.append("ParticleIndexesKey")
2224 
2225 
2226 ObjectKeys=list
2227 _plural_types.append("ObjectKeys")
2228 _value_types.append("ObjectKey")
2229 
2230 
2231 ModelKeys=list
2232 _plural_types.append("ModelKeys")
2233 _value_types.append("ModelKey")
2234 
2235 
2236 TriggerKeys=list
2237 _plural_types.append("TriggerKeys")
2238 _value_types.append("TriggerKey")
2239 
2240 
2241 SparseFloatKeys=list
2242 _plural_types.append("SparseFloatKeys")
2243 _value_types.append("SparseFloatKey")
2244 
2245 
2246 SparseIntKeys=list
2247 _plural_types.append("SparseIntKeys")
2248 _value_types.append("SparseIntKey")
2249 
2250 
2251 SparseStringKeys=list
2252 _plural_types.append("SparseStringKeys")
2253 _value_types.append("SparseStringKey")
2254 
2255 
2256 SparseParticleIndexKeys=list
2257 _plural_types.append("SparseParticleIndexKeys")
2258 _value_types.append("SparseParticleIndexKey")
2259 
2260 
2261 Vector3DKeys=list
2262 _plural_types.append("Vector3DKeys")
2263 _value_types.append("Vector3DKey")
2264 
2265 
2266 Vector4DKeys=list
2267 _plural_types.append("Vector4DKeys")
2268 _value_types.append("Vector4DKey")
2269 
2270 
2271 Vector3DDerivKeys=list
2272 _plural_types.append("Vector3DDerivKeys")
2273 _value_types.append("Vector3DDerivKey")
2274 
2275 
2276 Vector4DDerivKeys=list
2277 _plural_types.append("Vector4DDerivKeys")
2278 _value_types.append("Vector4DDerivKey")
2279 
2280 
2281 _raii_types.append("ScopedSetFloatAttribute")
2282 
2283 
2284 _object_types.append("ScoringFunction")
2285 
2286 
2287 def _object_cast_to_ScoringFunction(o):
2288  r"""_object_cast_to_ScoringFunction(Object o) -> ScoringFunction"""
2289  return _IMP_kernel._object_cast_to_ScoringFunction(o)
2290 
2291 _object_types.append("ModelObject")
2292 
2293 
2294 def _object_cast_to_ModelObject(o):
2295  r"""_object_cast_to_ModelObject(Object o) -> ModelObject"""
2296  return _IMP_kernel._object_cast_to_ModelObject(o)
2297 
2298 _object_types.append("_RestraintsScoringFunction")
2299 
2300 
2301 def _object_cast_to__RestraintsScoringFunction(o):
2302  r"""_object_cast_to__RestraintsScoringFunction(Object o) -> _RestraintsScoringFunction"""
2303  return _IMP_kernel._object_cast_to__RestraintsScoringFunction(o)
2304 
2305 def _TrivialDecorators(l=[]):
2306  return [_TrivialDecorator(x) for x in l]
2307 _plural_types.append("_TrivialDecorators")
2308 
2309 
2310 _value_types.append("_TrivialDecorator")
2311 
2312 
2313 def _TrivialDerivedDecorators(l=[]):
2314  return [_TrivialDerivedDecorator(x) for x in l]
2315 _plural_types.append("_TrivialDerivedDecorators")
2316 
2317 
2318 _value_types.append("_TrivialDerivedDecorator")
2319 
2320 
2321 def _TrivialTraitsDecorators(l=[]):
2322  return [_TrivialTraitsDecorator(x) for x in l]
2323 _plural_types.append("_TrivialTraitsDecorators")
2324 
2325 
2326 _value_types.append("_TrivialTraitsDecorator")
2327 
2328 
2329 _object_types.append("_ConstRestraint")
2330 
2331 
2332 def _object_cast_to__ConstRestraint(o):
2333  r"""_object_cast_to__ConstRestraint(Object o) -> _ConstRestraint"""
2334  return _IMP_kernel._object_cast_to__ConstRestraint(o)
2335 
2336 _object_types.append("_ConstOptimizer")
2337 
2338 
2339 def _object_cast_to__ConstOptimizer(o):
2340  r"""_object_cast_to__ConstOptimizer(Object o) -> _ConstOptimizer"""
2341  return _IMP_kernel._object_cast_to__ConstOptimizer(o)
2342 
2343 _object_types.append("_ConstSingletonScore")
2344 
2345 
2346 def _object_cast_to__ConstSingletonScore(o):
2347  r"""_object_cast_to__ConstSingletonScore(Object o) -> _ConstSingletonScore"""
2348  return _IMP_kernel._object_cast_to__ConstSingletonScore(o)
2349 
2350 _object_types.append("_ConstPairScore")
2351 
2352 
2353 def _object_cast_to__ConstPairScore(o):
2354  r"""_object_cast_to__ConstPairScore(Object o) -> _ConstPairScore"""
2355  return _IMP_kernel._object_cast_to__ConstPairScore(o)
2356 class DependencyGraph(Object):
2357  r"""Proxy of C++ IMP::internal::BoostDigraph< IMP::DependencyGraph,IMP::ModelObject *,IMP::ShowDependencyGraphVertex > class."""
2358 
2359  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2360  __repr__ = _swig_repr
2361 
2362  def __init__(self):
2363  r"""__init__(DependencyGraph self) -> DependencyGraph"""
2364  _IMP_kernel.DependencyGraph_swiginit(self, _IMP_kernel.new_DependencyGraph())
2365 
2366  def get_graph(self):
2367  r"""get_graph(DependencyGraph self) -> IMP::DependencyGraph const &"""
2368  return _IMP_kernel.DependencyGraph_get_graph(self)
2369 
2370  def get_vertices(self):
2371  r"""get_vertices(DependencyGraph self) -> IMP::internal::BoostDigraph< IMP::DependencyGraph,IMP::ModelObject *,IMP::ShowDependencyGraphVertex >::VertexDescriptors"""
2372  return _IMP_kernel.DependencyGraph_get_vertices(self)
2373 
2374  def get_vertex_name(self, i):
2375  r"""get_vertex_name(DependencyGraph self, IMP::internal::BoostDigraph< IMP::DependencyGraph,IMP::ModelObject *,IMP::ShowDependencyGraphVertex >::VertexDescriptor i) -> ModelObject"""
2376  return _IMP_kernel.DependencyGraph_get_vertex_name(self, i)
2377 
2378  def get_in_neighbors(self, v):
2379  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"""
2380  return _IMP_kernel.DependencyGraph_get_in_neighbors(self, v)
2381 
2382  def get_out_neighbors(self, v):
2383  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"""
2384  return _IMP_kernel.DependencyGraph_get_out_neighbors(self, v)
2385 
2386  def show_graphviz(self, *args):
2387  r"""show_graphviz(DependencyGraph self, _ostream out=std::cout)"""
2388  return _IMP_kernel.DependencyGraph_show_graphviz(self, *args)
2389 
2390  def get_graphviz_string(self):
2391  r"""get_graphviz_string(DependencyGraph self) -> std::string"""
2392  return _IMP_kernel.DependencyGraph_get_graphviz_string(self)
2393 
2394  def add_edge(self, v0, v1):
2395  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)"""
2396  return _IMP_kernel.DependencyGraph_add_edge(self, v0, v1)
2397 
2398  def add_vertex(self, l):
2399  r"""add_vertex(DependencyGraph self, ModelObject l) -> IMP::internal::BoostDigraph< IMP::DependencyGraph,IMP::ModelObject *,IMP::ShowDependencyGraphVertex >::VertexDescriptor"""
2400  return _IMP_kernel.DependencyGraph_add_vertex(self, l)
2401 
2402  def remove_vertex(self, l):
2403  r"""remove_vertex(DependencyGraph self, IMP::internal::BoostDigraph< IMP::DependencyGraph,IMP::ModelObject *,IMP::ShowDependencyGraphVertex >::VertexDescriptor l)"""
2404  return _IMP_kernel.DependencyGraph_remove_vertex(self, l)
2405  __swig_destroy__ = _IMP_kernel.delete_DependencyGraph
2406 
2407 # Register DependencyGraph in _IMP_kernel:
2408 _IMP_kernel.DependencyGraph_swigregister(DependencyGraph)
2409 
2410 _value_types.append("DependencyGraph")
2411 
2412 class FloatKey(_Value):
2413  r"""Proxy of C++ IMP::Key< 0 > class."""
2414 
2415  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2416 
2417  def __init__(self, *args):
2418  r"""
2419  __init__(FloatKey self) -> FloatKey
2420  __init__(FloatKey self, std::string const & c, bool is_implicit_add_permitted=True) -> FloatKey
2421  __init__(FloatKey self, unsigned int i) -> FloatKey
2422  """
2423  _IMP_kernel.FloatKey_swiginit(self, _IMP_kernel.new_FloatKey(*args))
2424 
2425  @staticmethod
2426  def add_key(sc):
2427  r"""add_key(std::string sc) -> unsigned int"""
2428  return _IMP_kernel.FloatKey_add_key(sc)
2429 
2430  @staticmethod
2431  def get_key_exists(sc):
2432  r"""get_key_exists(std::string sc) -> bool"""
2433  return _IMP_kernel.FloatKey_get_key_exists(sc)
2434 
2435  def get_string(self):
2436  r"""get_string(FloatKey self) -> std::string const"""
2437  return _IMP_kernel.FloatKey_get_string(self)
2438 
2439  def __cmp__(self, o):
2440  r"""__cmp__(FloatKey self, FloatKey o) -> int"""
2441  return _IMP_kernel.FloatKey___cmp__(self, o)
2442 
2443  def __eq__(self, o):
2444  r"""__eq__(FloatKey self, FloatKey o) -> bool"""
2445  return _IMP_kernel.FloatKey___eq__(self, o)
2446 
2447  def __ne__(self, o):
2448  r"""__ne__(FloatKey self, FloatKey o) -> bool"""
2449  return _IMP_kernel.FloatKey___ne__(self, o)
2450 
2451  def __lt__(self, o):
2452  r"""__lt__(FloatKey self, FloatKey o) -> bool"""
2453  return _IMP_kernel.FloatKey___lt__(self, o)
2454 
2455  def __gt__(self, o):
2456  r"""__gt__(FloatKey self, FloatKey o) -> bool"""
2457  return _IMP_kernel.FloatKey___gt__(self, o)
2458 
2459  def __ge__(self, o):
2460  r"""__ge__(FloatKey self, FloatKey o) -> bool"""
2461  return _IMP_kernel.FloatKey___ge__(self, o)
2462 
2463  def __le__(self, o):
2464  r"""__le__(FloatKey self, FloatKey o) -> bool"""
2465  return _IMP_kernel.FloatKey___le__(self, o)
2466 
2467  def __hash__(self):
2468  r"""__hash__(FloatKey self) -> std::size_t"""
2469  return _IMP_kernel.FloatKey___hash__(self)
2470 
2471  def show(self, *args):
2472  r"""show(FloatKey self, _ostream out=std::cout)"""
2473  return _IMP_kernel.FloatKey_show(self, *args)
2474 
2475  @staticmethod
2476  def add_alias(old_key, new_name):
2477  r"""add_alias(FloatKey old_key, std::string new_name) -> FloatKey"""
2478  return _IMP_kernel.FloatKey_add_alias(old_key, new_name)
2479 
2480  @staticmethod
2481  def get_number_of_keys():
2482  r"""get_number_of_keys() -> unsigned int"""
2483  return _IMP_kernel.FloatKey_get_number_of_keys()
2484 
2485  def get_index(self):
2486  r"""get_index(FloatKey self) -> unsigned int"""
2487  return _IMP_kernel.FloatKey_get_index(self)
2488 
2489  @staticmethod
2490  def show_all(out):
2491  r"""show_all(_ostream out)"""
2492  return _IMP_kernel.FloatKey_show_all(out)
2493 
2494  @staticmethod
2495  def get_all_strings():
2496  r"""get_all_strings() -> IMP::Vector< std::string >"""
2497  return _IMP_kernel.FloatKey_get_all_strings()
2498 
2499  @staticmethod
2500  def get_number_unique():
2501  r"""get_number_unique() -> unsigned int"""
2502  return _IMP_kernel.FloatKey_get_number_unique()
2503 
2504  def __str__(self):
2505  r"""__str__(FloatKey self) -> std::string"""
2506  return _IMP_kernel.FloatKey___str__(self)
2507 
2508  def __repr__(self):
2509  r"""__repr__(FloatKey self) -> std::string"""
2510  return _IMP_kernel.FloatKey___repr__(self)
2511  __swig_destroy__ = _IMP_kernel.delete_FloatKey
2512 
2513 # Register FloatKey in _IMP_kernel:
2514 _IMP_kernel.FloatKey_swigregister(FloatKey)
2515 class IntKey(_Value):
2516  r"""Proxy of C++ IMP::Key< 1 > class."""
2517 
2518  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2519 
2520  def __init__(self, *args):
2521  r"""
2522  __init__(IntKey self) -> IntKey
2523  __init__(IntKey self, std::string const & c, bool is_implicit_add_permitted=True) -> IntKey
2524  __init__(IntKey self, unsigned int i) -> IntKey
2525  """
2526  _IMP_kernel.IntKey_swiginit(self, _IMP_kernel.new_IntKey(*args))
2527 
2528  @staticmethod
2529  def add_key(sc):
2530  r"""add_key(std::string sc) -> unsigned int"""
2531  return _IMP_kernel.IntKey_add_key(sc)
2532 
2533  @staticmethod
2534  def get_key_exists(sc):
2535  r"""get_key_exists(std::string sc) -> bool"""
2536  return _IMP_kernel.IntKey_get_key_exists(sc)
2537 
2538  def get_string(self):
2539  r"""get_string(IntKey self) -> std::string const"""
2540  return _IMP_kernel.IntKey_get_string(self)
2541 
2542  def __cmp__(self, o):
2543  r"""__cmp__(IntKey self, IntKey o) -> int"""
2544  return _IMP_kernel.IntKey___cmp__(self, o)
2545 
2546  def __eq__(self, o):
2547  r"""__eq__(IntKey self, IntKey o) -> bool"""
2548  return _IMP_kernel.IntKey___eq__(self, o)
2549 
2550  def __ne__(self, o):
2551  r"""__ne__(IntKey self, IntKey o) -> bool"""
2552  return _IMP_kernel.IntKey___ne__(self, o)
2553 
2554  def __lt__(self, o):
2555  r"""__lt__(IntKey self, IntKey o) -> bool"""
2556  return _IMP_kernel.IntKey___lt__(self, o)
2557 
2558  def __gt__(self, o):
2559  r"""__gt__(IntKey self, IntKey o) -> bool"""
2560  return _IMP_kernel.IntKey___gt__(self, o)
2561 
2562  def __ge__(self, o):
2563  r"""__ge__(IntKey self, IntKey o) -> bool"""
2564  return _IMP_kernel.IntKey___ge__(self, o)
2565 
2566  def __le__(self, o):
2567  r"""__le__(IntKey self, IntKey o) -> bool"""
2568  return _IMP_kernel.IntKey___le__(self, o)
2569 
2570  def __hash__(self):
2571  r"""__hash__(IntKey self) -> std::size_t"""
2572  return _IMP_kernel.IntKey___hash__(self)
2573 
2574  def show(self, *args):
2575  r"""show(IntKey self, _ostream out=std::cout)"""
2576  return _IMP_kernel.IntKey_show(self, *args)
2577 
2578  @staticmethod
2579  def add_alias(old_key, new_name):
2580  r"""add_alias(IntKey old_key, std::string new_name) -> IntKey"""
2581  return _IMP_kernel.IntKey_add_alias(old_key, new_name)
2582 
2583  @staticmethod
2584  def get_number_of_keys():
2585  r"""get_number_of_keys() -> unsigned int"""
2586  return _IMP_kernel.IntKey_get_number_of_keys()
2587 
2588  def get_index(self):
2589  r"""get_index(IntKey self) -> unsigned int"""
2590  return _IMP_kernel.IntKey_get_index(self)
2591 
2592  @staticmethod
2593  def show_all(out):
2594  r"""show_all(_ostream out)"""
2595  return _IMP_kernel.IntKey_show_all(out)
2596 
2597  @staticmethod
2598  def get_all_strings():
2599  r"""get_all_strings() -> IMP::Vector< std::string >"""
2600  return _IMP_kernel.IntKey_get_all_strings()
2601 
2602  @staticmethod
2603  def get_number_unique():
2604  r"""get_number_unique() -> unsigned int"""
2605  return _IMP_kernel.IntKey_get_number_unique()
2606 
2607  def __str__(self):
2608  r"""__str__(IntKey self) -> std::string"""
2609  return _IMP_kernel.IntKey___str__(self)
2610 
2611  def __repr__(self):
2612  r"""__repr__(IntKey self) -> std::string"""
2613  return _IMP_kernel.IntKey___repr__(self)
2614  __swig_destroy__ = _IMP_kernel.delete_IntKey
2615 
2616 # Register IntKey in _IMP_kernel:
2617 _IMP_kernel.IntKey_swigregister(IntKey)
2618 class StringKey(_Value):
2619  r"""Proxy of C++ IMP::Key< 2 > class."""
2620 
2621  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2622 
2623  def __init__(self, *args):
2624  r"""
2625  __init__(StringKey self) -> StringKey
2626  __init__(StringKey self, std::string const & c, bool is_implicit_add_permitted=True) -> StringKey
2627  __init__(StringKey self, unsigned int i) -> StringKey
2628  """
2629  _IMP_kernel.StringKey_swiginit(self, _IMP_kernel.new_StringKey(*args))
2630 
2631  @staticmethod
2632  def add_key(sc):
2633  r"""add_key(std::string sc) -> unsigned int"""
2634  return _IMP_kernel.StringKey_add_key(sc)
2635 
2636  @staticmethod
2637  def get_key_exists(sc):
2638  r"""get_key_exists(std::string sc) -> bool"""
2639  return _IMP_kernel.StringKey_get_key_exists(sc)
2640 
2641  def get_string(self):
2642  r"""get_string(StringKey self) -> std::string const"""
2643  return _IMP_kernel.StringKey_get_string(self)
2644 
2645  def __cmp__(self, o):
2646  r"""__cmp__(StringKey self, StringKey o) -> int"""
2647  return _IMP_kernel.StringKey___cmp__(self, o)
2648 
2649  def __eq__(self, o):
2650  r"""__eq__(StringKey self, StringKey o) -> bool"""
2651  return _IMP_kernel.StringKey___eq__(self, o)
2652 
2653  def __ne__(self, o):
2654  r"""__ne__(StringKey self, StringKey o) -> bool"""
2655  return _IMP_kernel.StringKey___ne__(self, o)
2656 
2657  def __lt__(self, o):
2658  r"""__lt__(StringKey self, StringKey o) -> bool"""
2659  return _IMP_kernel.StringKey___lt__(self, o)
2660 
2661  def __gt__(self, o):
2662  r"""__gt__(StringKey self, StringKey o) -> bool"""
2663  return _IMP_kernel.StringKey___gt__(self, o)
2664 
2665  def __ge__(self, o):
2666  r"""__ge__(StringKey self, StringKey o) -> bool"""
2667  return _IMP_kernel.StringKey___ge__(self, o)
2668 
2669  def __le__(self, o):
2670  r"""__le__(StringKey self, StringKey o) -> bool"""
2671  return _IMP_kernel.StringKey___le__(self, o)
2672 
2673  def __hash__(self):
2674  r"""__hash__(StringKey self) -> std::size_t"""
2675  return _IMP_kernel.StringKey___hash__(self)
2676 
2677  def show(self, *args):
2678  r"""show(StringKey self, _ostream out=std::cout)"""
2679  return _IMP_kernel.StringKey_show(self, *args)
2680 
2681  @staticmethod
2682  def add_alias(old_key, new_name):
2683  r"""add_alias(StringKey old_key, std::string new_name) -> StringKey"""
2684  return _IMP_kernel.StringKey_add_alias(old_key, new_name)
2685 
2686  @staticmethod
2687  def get_number_of_keys():
2688  r"""get_number_of_keys() -> unsigned int"""
2689  return _IMP_kernel.StringKey_get_number_of_keys()
2690 
2691  def get_index(self):
2692  r"""get_index(StringKey self) -> unsigned int"""
2693  return _IMP_kernel.StringKey_get_index(self)
2694 
2695  @staticmethod
2696  def show_all(out):
2697  r"""show_all(_ostream out)"""
2698  return _IMP_kernel.StringKey_show_all(out)
2699 
2700  @staticmethod
2701  def get_all_strings():
2702  r"""get_all_strings() -> IMP::Vector< std::string >"""
2703  return _IMP_kernel.StringKey_get_all_strings()
2704 
2705  @staticmethod
2706  def get_number_unique():
2707  r"""get_number_unique() -> unsigned int"""
2708  return _IMP_kernel.StringKey_get_number_unique()
2709 
2710  def __str__(self):
2711  r"""__str__(StringKey self) -> std::string"""
2712  return _IMP_kernel.StringKey___str__(self)
2713 
2714  def __repr__(self):
2715  r"""__repr__(StringKey self) -> std::string"""
2716  return _IMP_kernel.StringKey___repr__(self)
2717  __swig_destroy__ = _IMP_kernel.delete_StringKey
2718 
2719 # Register StringKey in _IMP_kernel:
2720 _IMP_kernel.StringKey_swigregister(StringKey)
2721 class ParticleIndexKey(_Value):
2722  r"""Proxy of C++ IMP::Key< 3 > class."""
2723 
2724  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2725 
2726  def __init__(self, *args):
2727  r"""
2728  __init__(ParticleIndexKey self) -> ParticleIndexKey
2729  __init__(ParticleIndexKey self, std::string const & c, bool is_implicit_add_permitted=True) -> ParticleIndexKey
2730  __init__(ParticleIndexKey self, unsigned int i) -> ParticleIndexKey
2731  """
2732  _IMP_kernel.ParticleIndexKey_swiginit(self, _IMP_kernel.new_ParticleIndexKey(*args))
2733 
2734  @staticmethod
2735  def add_key(sc):
2736  r"""add_key(std::string sc) -> unsigned int"""
2737  return _IMP_kernel.ParticleIndexKey_add_key(sc)
2738 
2739  @staticmethod
2740  def get_key_exists(sc):
2741  r"""get_key_exists(std::string sc) -> bool"""
2742  return _IMP_kernel.ParticleIndexKey_get_key_exists(sc)
2743 
2744  def get_string(self):
2745  r"""get_string(ParticleIndexKey self) -> std::string const"""
2746  return _IMP_kernel.ParticleIndexKey_get_string(self)
2747 
2748  def __cmp__(self, o):
2749  r"""__cmp__(ParticleIndexKey self, ParticleIndexKey o) -> int"""
2750  return _IMP_kernel.ParticleIndexKey___cmp__(self, o)
2751 
2752  def __eq__(self, o):
2753  r"""__eq__(ParticleIndexKey self, ParticleIndexKey o) -> bool"""
2754  return _IMP_kernel.ParticleIndexKey___eq__(self, o)
2755 
2756  def __ne__(self, o):
2757  r"""__ne__(ParticleIndexKey self, ParticleIndexKey o) -> bool"""
2758  return _IMP_kernel.ParticleIndexKey___ne__(self, o)
2759 
2760  def __lt__(self, o):
2761  r"""__lt__(ParticleIndexKey self, ParticleIndexKey o) -> bool"""
2762  return _IMP_kernel.ParticleIndexKey___lt__(self, o)
2763 
2764  def __gt__(self, o):
2765  r"""__gt__(ParticleIndexKey self, ParticleIndexKey o) -> bool"""
2766  return _IMP_kernel.ParticleIndexKey___gt__(self, o)
2767 
2768  def __ge__(self, o):
2769  r"""__ge__(ParticleIndexKey self, ParticleIndexKey o) -> bool"""
2770  return _IMP_kernel.ParticleIndexKey___ge__(self, o)
2771 
2772  def __le__(self, o):
2773  r"""__le__(ParticleIndexKey self, ParticleIndexKey o) -> bool"""
2774  return _IMP_kernel.ParticleIndexKey___le__(self, o)
2775 
2776  def __hash__(self):
2777  r"""__hash__(ParticleIndexKey self) -> std::size_t"""
2778  return _IMP_kernel.ParticleIndexKey___hash__(self)
2779 
2780  def show(self, *args):
2781  r"""show(ParticleIndexKey self, _ostream out=std::cout)"""
2782  return _IMP_kernel.ParticleIndexKey_show(self, *args)
2783 
2784  @staticmethod
2785  def add_alias(old_key, new_name):
2786  r"""add_alias(ParticleIndexKey old_key, std::string new_name) -> ParticleIndexKey"""
2787  return _IMP_kernel.ParticleIndexKey_add_alias(old_key, new_name)
2788 
2789  @staticmethod
2790  def get_number_of_keys():
2791  r"""get_number_of_keys() -> unsigned int"""
2792  return _IMP_kernel.ParticleIndexKey_get_number_of_keys()
2793 
2794  def get_index(self):
2795  r"""get_index(ParticleIndexKey self) -> unsigned int"""
2796  return _IMP_kernel.ParticleIndexKey_get_index(self)
2797 
2798  @staticmethod
2799  def show_all(out):
2800  r"""show_all(_ostream out)"""
2801  return _IMP_kernel.ParticleIndexKey_show_all(out)
2802 
2803  @staticmethod
2804  def get_all_strings():
2805  r"""get_all_strings() -> IMP::Vector< std::string >"""
2806  return _IMP_kernel.ParticleIndexKey_get_all_strings()
2807 
2808  @staticmethod
2809  def get_number_unique():
2810  r"""get_number_unique() -> unsigned int"""
2811  return _IMP_kernel.ParticleIndexKey_get_number_unique()
2812 
2813  def __str__(self):
2814  r"""__str__(ParticleIndexKey self) -> std::string"""
2815  return _IMP_kernel.ParticleIndexKey___str__(self)
2816 
2817  def __repr__(self):
2818  r"""__repr__(ParticleIndexKey self) -> std::string"""
2819  return _IMP_kernel.ParticleIndexKey___repr__(self)
2820  __swig_destroy__ = _IMP_kernel.delete_ParticleIndexKey
2821 
2822 # Register ParticleIndexKey in _IMP_kernel:
2823 _IMP_kernel.ParticleIndexKey_swigregister(ParticleIndexKey)
2824 class ObjectKey(_Value):
2825  r"""Proxy of C++ IMP::Key< 4 > class."""
2826 
2827  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2828 
2829  def __init__(self, *args):
2830  r"""
2831  __init__(ObjectKey self) -> ObjectKey
2832  __init__(ObjectKey self, std::string const & c, bool is_implicit_add_permitted=True) -> ObjectKey
2833  __init__(ObjectKey self, unsigned int i) -> ObjectKey
2834  """
2835  _IMP_kernel.ObjectKey_swiginit(self, _IMP_kernel.new_ObjectKey(*args))
2836 
2837  @staticmethod
2838  def add_key(sc):
2839  r"""add_key(std::string sc) -> unsigned int"""
2840  return _IMP_kernel.ObjectKey_add_key(sc)
2841 
2842  @staticmethod
2843  def get_key_exists(sc):
2844  r"""get_key_exists(std::string sc) -> bool"""
2845  return _IMP_kernel.ObjectKey_get_key_exists(sc)
2846 
2847  def get_string(self):
2848  r"""get_string(ObjectKey self) -> std::string const"""
2849  return _IMP_kernel.ObjectKey_get_string(self)
2850 
2851  def __cmp__(self, o):
2852  r"""__cmp__(ObjectKey self, ObjectKey o) -> int"""
2853  return _IMP_kernel.ObjectKey___cmp__(self, o)
2854 
2855  def __eq__(self, o):
2856  r"""__eq__(ObjectKey self, ObjectKey o) -> bool"""
2857  return _IMP_kernel.ObjectKey___eq__(self, o)
2858 
2859  def __ne__(self, o):
2860  r"""__ne__(ObjectKey self, ObjectKey o) -> bool"""
2861  return _IMP_kernel.ObjectKey___ne__(self, o)
2862 
2863  def __lt__(self, o):
2864  r"""__lt__(ObjectKey self, ObjectKey o) -> bool"""
2865  return _IMP_kernel.ObjectKey___lt__(self, o)
2866 
2867  def __gt__(self, o):
2868  r"""__gt__(ObjectKey self, ObjectKey o) -> bool"""
2869  return _IMP_kernel.ObjectKey___gt__(self, o)
2870 
2871  def __ge__(self, o):
2872  r"""__ge__(ObjectKey self, ObjectKey o) -> bool"""
2873  return _IMP_kernel.ObjectKey___ge__(self, o)
2874 
2875  def __le__(self, o):
2876  r"""__le__(ObjectKey self, ObjectKey o) -> bool"""
2877  return _IMP_kernel.ObjectKey___le__(self, o)
2878 
2879  def __hash__(self):
2880  r"""__hash__(ObjectKey self) -> std::size_t"""
2881  return _IMP_kernel.ObjectKey___hash__(self)
2882 
2883  def show(self, *args):
2884  r"""show(ObjectKey self, _ostream out=std::cout)"""
2885  return _IMP_kernel.ObjectKey_show(self, *args)
2886 
2887  @staticmethod
2888  def add_alias(old_key, new_name):
2889  r"""add_alias(ObjectKey old_key, std::string new_name) -> ObjectKey"""
2890  return _IMP_kernel.ObjectKey_add_alias(old_key, new_name)
2891 
2892  @staticmethod
2893  def get_number_of_keys():
2894  r"""get_number_of_keys() -> unsigned int"""
2895  return _IMP_kernel.ObjectKey_get_number_of_keys()
2896 
2897  def get_index(self):
2898  r"""get_index(ObjectKey self) -> unsigned int"""
2899  return _IMP_kernel.ObjectKey_get_index(self)
2900 
2901  @staticmethod
2902  def show_all(out):
2903  r"""show_all(_ostream out)"""
2904  return _IMP_kernel.ObjectKey_show_all(out)
2905 
2906  @staticmethod
2907  def get_all_strings():
2908  r"""get_all_strings() -> IMP::Vector< std::string >"""
2909  return _IMP_kernel.ObjectKey_get_all_strings()
2910 
2911  @staticmethod
2912  def get_number_unique():
2913  r"""get_number_unique() -> unsigned int"""
2914  return _IMP_kernel.ObjectKey_get_number_unique()
2915 
2916  def __str__(self):
2917  r"""__str__(ObjectKey self) -> std::string"""
2918  return _IMP_kernel.ObjectKey___str__(self)
2919 
2920  def __repr__(self):
2921  r"""__repr__(ObjectKey self) -> std::string"""
2922  return _IMP_kernel.ObjectKey___repr__(self)
2923  __swig_destroy__ = _IMP_kernel.delete_ObjectKey
2924 
2925 # Register ObjectKey in _IMP_kernel:
2926 _IMP_kernel.ObjectKey_swigregister(ObjectKey)
2927 class IntsKey(_Value):
2928  r"""Proxy of C++ IMP::Key< 5 > class."""
2929 
2930  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2931 
2932  def __init__(self, *args):
2933  r"""
2934  __init__(IntsKey self) -> IntsKey
2935  __init__(IntsKey self, std::string const & c, bool is_implicit_add_permitted=True) -> IntsKey
2936  __init__(IntsKey self, unsigned int i) -> IntsKey
2937  """
2938  _IMP_kernel.IntsKey_swiginit(self, _IMP_kernel.new_IntsKey(*args))
2939 
2940  @staticmethod
2941  def add_key(sc):
2942  r"""add_key(std::string sc) -> unsigned int"""
2943  return _IMP_kernel.IntsKey_add_key(sc)
2944 
2945  @staticmethod
2946  def get_key_exists(sc):
2947  r"""get_key_exists(std::string sc) -> bool"""
2948  return _IMP_kernel.IntsKey_get_key_exists(sc)
2949 
2950  def get_string(self):
2951  r"""get_string(IntsKey self) -> std::string const"""
2952  return _IMP_kernel.IntsKey_get_string(self)
2953 
2954  def __cmp__(self, o):
2955  r"""__cmp__(IntsKey self, IntsKey o) -> int"""
2956  return _IMP_kernel.IntsKey___cmp__(self, o)
2957 
2958  def __eq__(self, o):
2959  r"""__eq__(IntsKey self, IntsKey o) -> bool"""
2960  return _IMP_kernel.IntsKey___eq__(self, o)
2961 
2962  def __ne__(self, o):
2963  r"""__ne__(IntsKey self, IntsKey o) -> bool"""
2964  return _IMP_kernel.IntsKey___ne__(self, o)
2965 
2966  def __lt__(self, o):
2967  r"""__lt__(IntsKey self, IntsKey o) -> bool"""
2968  return _IMP_kernel.IntsKey___lt__(self, o)
2969 
2970  def __gt__(self, o):
2971  r"""__gt__(IntsKey self, IntsKey o) -> bool"""
2972  return _IMP_kernel.IntsKey___gt__(self, o)
2973 
2974  def __ge__(self, o):
2975  r"""__ge__(IntsKey self, IntsKey o) -> bool"""
2976  return _IMP_kernel.IntsKey___ge__(self, o)
2977 
2978  def __le__(self, o):
2979  r"""__le__(IntsKey self, IntsKey o) -> bool"""
2980  return _IMP_kernel.IntsKey___le__(self, o)
2981 
2982  def __hash__(self):
2983  r"""__hash__(IntsKey self) -> std::size_t"""
2984  return _IMP_kernel.IntsKey___hash__(self)
2985 
2986  def show(self, *args):
2987  r"""show(IntsKey self, _ostream out=std::cout)"""
2988  return _IMP_kernel.IntsKey_show(self, *args)
2989 
2990  @staticmethod
2991  def add_alias(old_key, new_name):
2992  r"""add_alias(IntsKey old_key, std::string new_name) -> IntsKey"""
2993  return _IMP_kernel.IntsKey_add_alias(old_key, new_name)
2994 
2995  @staticmethod
2996  def get_number_of_keys():
2997  r"""get_number_of_keys() -> unsigned int"""
2998  return _IMP_kernel.IntsKey_get_number_of_keys()
2999 
3000  def get_index(self):
3001  r"""get_index(IntsKey self) -> unsigned int"""
3002  return _IMP_kernel.IntsKey_get_index(self)
3003 
3004  @staticmethod
3005  def show_all(out):
3006  r"""show_all(_ostream out)"""
3007  return _IMP_kernel.IntsKey_show_all(out)
3008 
3009  @staticmethod
3010  def get_all_strings():
3011  r"""get_all_strings() -> IMP::Vector< std::string >"""
3012  return _IMP_kernel.IntsKey_get_all_strings()
3013 
3014  @staticmethod
3015  def get_number_unique():
3016  r"""get_number_unique() -> unsigned int"""
3017  return _IMP_kernel.IntsKey_get_number_unique()
3018 
3019  def __str__(self):
3020  r"""__str__(IntsKey self) -> std::string"""
3021  return _IMP_kernel.IntsKey___str__(self)
3022 
3023  def __repr__(self):
3024  r"""__repr__(IntsKey self) -> std::string"""
3025  return _IMP_kernel.IntsKey___repr__(self)
3026  __swig_destroy__ = _IMP_kernel.delete_IntsKey
3027 
3028 # Register IntsKey in _IMP_kernel:
3029 _IMP_kernel.IntsKey_swigregister(IntsKey)
3030 class ParticleIndexesKey(_Value):
3031  r"""Proxy of C++ IMP::Key< 6 > class."""
3032 
3033  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
3034 
3035  def __init__(self, *args):
3036  r"""
3037  __init__(ParticleIndexesKey self) -> ParticleIndexesKey
3038  __init__(ParticleIndexesKey self, std::string const & c, bool is_implicit_add_permitted=True) -> ParticleIndexesKey
3039  __init__(ParticleIndexesKey self, unsigned int i) -> ParticleIndexesKey
3040  """
3041  _IMP_kernel.ParticleIndexesKey_swiginit(self, _IMP_kernel.new_ParticleIndexesKey(*args))
3042 
3043  @staticmethod
3044  def add_key(sc):
3045  r"""add_key(std::string sc) -> unsigned int"""
3046  return _IMP_kernel.ParticleIndexesKey_add_key(sc)
3047 
3048  @staticmethod
3049  def get_key_exists(sc):
3050  r"""get_key_exists(std::string sc) -> bool"""
3051  return _IMP_kernel.ParticleIndexesKey_get_key_exists(sc)
3052 
3053  def get_string(self):
3054  r"""get_string(ParticleIndexesKey self) -> std::string const"""
3055  return _IMP_kernel.ParticleIndexesKey_get_string(self)
3056 
3057  def __cmp__(self, o):
3058  r"""__cmp__(ParticleIndexesKey self, ParticleIndexesKey o) -> int"""
3059  return _IMP_kernel.ParticleIndexesKey___cmp__(self, o)
3060 
3061  def __eq__(self, o):
3062  r"""__eq__(ParticleIndexesKey self, ParticleIndexesKey o) -> bool"""
3063  return _IMP_kernel.ParticleIndexesKey___eq__(self, o)
3064 
3065  def __ne__(self, o):
3066  r"""__ne__(ParticleIndexesKey self, ParticleIndexesKey o) -> bool"""
3067  return _IMP_kernel.ParticleIndexesKey___ne__(self, o)
3068 
3069  def __lt__(self, o):
3070  r"""__lt__(ParticleIndexesKey self, ParticleIndexesKey o) -> bool"""
3071  return _IMP_kernel.ParticleIndexesKey___lt__(self, o)
3072 
3073  def __gt__(self, o):
3074  r"""__gt__(ParticleIndexesKey self, ParticleIndexesKey o) -> bool"""
3075  return _IMP_kernel.ParticleIndexesKey___gt__(self, o)
3076 
3077  def __ge__(self, o):
3078  r"""__ge__(ParticleIndexesKey self, ParticleIndexesKey o) -> bool"""
3079  return _IMP_kernel.ParticleIndexesKey___ge__(self, o)
3080 
3081  def __le__(self, o):
3082  r"""__le__(ParticleIndexesKey self, ParticleIndexesKey o) -> bool"""
3083  return _IMP_kernel.ParticleIndexesKey___le__(self, o)
3084 
3085  def __hash__(self):
3086  r"""__hash__(ParticleIndexesKey self) -> std::size_t"""
3087  return _IMP_kernel.ParticleIndexesKey___hash__(self)
3088 
3089  def show(self, *args):
3090  r"""show(ParticleIndexesKey self, _ostream out=std::cout)"""
3091  return _IMP_kernel.ParticleIndexesKey_show(self, *args)
3092 
3093  @staticmethod
3094  def add_alias(old_key, new_name):
3095  r"""add_alias(ParticleIndexesKey old_key, std::string new_name) -> ParticleIndexesKey"""
3096  return _IMP_kernel.ParticleIndexesKey_add_alias(old_key, new_name)
3097 
3098  @staticmethod
3099  def get_number_of_keys():
3100  r"""get_number_of_keys() -> unsigned int"""
3101  return _IMP_kernel.ParticleIndexesKey_get_number_of_keys()
3102 
3103  def get_index(self):
3104  r"""get_index(ParticleIndexesKey self) -> unsigned int"""
3105  return _IMP_kernel.ParticleIndexesKey_get_index(self)
3106 
3107  @staticmethod
3108  def show_all(out):
3109  r"""show_all(_ostream out)"""
3110  return _IMP_kernel.ParticleIndexesKey_show_all(out)
3111 
3112  @staticmethod
3113  def get_all_strings():
3114  r"""get_all_strings() -> IMP::Vector< std::string >"""
3115  return _IMP_kernel.ParticleIndexesKey_get_all_strings()
3116 
3117  @staticmethod
3118  def get_number_unique():
3119  r"""get_number_unique() -> unsigned int"""
3120  return _IMP_kernel.ParticleIndexesKey_get_number_unique()
3121 
3122  def __str__(self):
3123  r"""__str__(ParticleIndexesKey self) -> std::string"""
3124  return _IMP_kernel.ParticleIndexesKey___str__(self)
3125 
3126  def __repr__(self):
3127  r"""__repr__(ParticleIndexesKey self) -> std::string"""
3128  return _IMP_kernel.ParticleIndexesKey___repr__(self)
3129  __swig_destroy__ = _IMP_kernel.delete_ParticleIndexesKey
3130 
3131 # Register ParticleIndexesKey in _IMP_kernel:
3132 _IMP_kernel.ParticleIndexesKey_swigregister(ParticleIndexesKey)
3133 class ModelKey(_Value):
3134  r"""Proxy of C++ IMP::Key< 8 > class."""
3135 
3136  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
3137 
3138  def __init__(self, *args):
3139  r"""
3140  __init__(ModelKey self) -> ModelKey
3141  __init__(ModelKey self, std::string const & c, bool is_implicit_add_permitted=True) -> ModelKey
3142  __init__(ModelKey self, unsigned int i) -> ModelKey
3143  """
3144  _IMP_kernel.ModelKey_swiginit(self, _IMP_kernel.new_ModelKey(*args))
3145 
3146  @staticmethod
3147  def add_key(sc):
3148  r"""add_key(std::string sc) -> unsigned int"""
3149  return _IMP_kernel.ModelKey_add_key(sc)
3150 
3151  @staticmethod
3152  def get_key_exists(sc):
3153  r"""get_key_exists(std::string sc) -> bool"""
3154  return _IMP_kernel.ModelKey_get_key_exists(sc)
3155 
3156  def get_string(self):
3157  r"""get_string(ModelKey self) -> std::string const"""
3158  return _IMP_kernel.ModelKey_get_string(self)
3159 
3160  def __cmp__(self, o):
3161  r"""__cmp__(ModelKey self, ModelKey o) -> int"""
3162  return _IMP_kernel.ModelKey___cmp__(self, o)
3163 
3164  def __eq__(self, o):
3165  r"""__eq__(ModelKey self, ModelKey o) -> bool"""
3166  return _IMP_kernel.ModelKey___eq__(self, o)
3167 
3168  def __ne__(self, o):
3169  r"""__ne__(ModelKey self, ModelKey o) -> bool"""
3170  return _IMP_kernel.ModelKey___ne__(self, o)
3171 
3172  def __lt__(self, o):
3173  r"""__lt__(ModelKey self, ModelKey o) -> bool"""
3174  return _IMP_kernel.ModelKey___lt__(self, o)
3175 
3176  def __gt__(self, o):
3177  r"""__gt__(ModelKey self, ModelKey o) -> bool"""
3178  return _IMP_kernel.ModelKey___gt__(self, o)
3179 
3180  def __ge__(self, o):
3181  r"""__ge__(ModelKey self, ModelKey o) -> bool"""
3182  return _IMP_kernel.ModelKey___ge__(self, o)
3183 
3184  def __le__(self, o):
3185  r"""__le__(ModelKey self, ModelKey o) -> bool"""
3186  return _IMP_kernel.ModelKey___le__(self, o)
3187 
3188  def __hash__(self):
3189  r"""__hash__(ModelKey self) -> std::size_t"""
3190  return _IMP_kernel.ModelKey___hash__(self)
3191 
3192  def show(self, *args):
3193  r"""show(ModelKey self, _ostream out=std::cout)"""
3194  return _IMP_kernel.ModelKey_show(self, *args)
3195 
3196  @staticmethod
3197  def add_alias(old_key, new_name):
3198  r"""add_alias(ModelKey old_key, std::string new_name) -> ModelKey"""
3199  return _IMP_kernel.ModelKey_add_alias(old_key, new_name)
3200 
3201  @staticmethod
3202  def get_number_of_keys():
3203  r"""get_number_of_keys() -> unsigned int"""
3204  return _IMP_kernel.ModelKey_get_number_of_keys()
3205 
3206  def get_index(self):
3207  r"""get_index(ModelKey self) -> unsigned int"""
3208  return _IMP_kernel.ModelKey_get_index(self)
3209 
3210  @staticmethod
3211  def show_all(out):
3212  r"""show_all(_ostream out)"""
3213  return _IMP_kernel.ModelKey_show_all(out)
3214 
3215  @staticmethod
3216  def get_all_strings():
3217  r"""get_all_strings() -> IMP::Vector< std::string >"""
3218  return _IMP_kernel.ModelKey_get_all_strings()
3219 
3220  @staticmethod
3221  def get_number_unique():
3222  r"""get_number_unique() -> unsigned int"""
3223  return _IMP_kernel.ModelKey_get_number_unique()
3224 
3225  def __str__(self):
3226  r"""__str__(ModelKey self) -> std::string"""
3227  return _IMP_kernel.ModelKey___str__(self)
3228 
3229  def __repr__(self):
3230  r"""__repr__(ModelKey self) -> std::string"""
3231  return _IMP_kernel.ModelKey___repr__(self)
3232  __swig_destroy__ = _IMP_kernel.delete_ModelKey
3233 
3234 # Register ModelKey in _IMP_kernel:
3235 _IMP_kernel.ModelKey_swigregister(ModelKey)
3236 class TriggerKey(_Value):
3237  r"""Proxy of C++ IMP::Key< 11 > class."""
3238 
3239  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
3240 
3241  def __init__(self, *args):
3242  r"""
3243  __init__(TriggerKey self) -> TriggerKey
3244  __init__(TriggerKey self, std::string const & c, bool is_implicit_add_permitted=True) -> TriggerKey
3245  __init__(TriggerKey self, unsigned int i) -> TriggerKey
3246  """
3247  _IMP_kernel.TriggerKey_swiginit(self, _IMP_kernel.new_TriggerKey(*args))
3248 
3249  @staticmethod
3250  def add_key(sc):
3251  r"""add_key(std::string sc) -> unsigned int"""
3252  return _IMP_kernel.TriggerKey_add_key(sc)
3253 
3254  @staticmethod
3255  def get_key_exists(sc):
3256  r"""get_key_exists(std::string sc) -> bool"""
3257  return _IMP_kernel.TriggerKey_get_key_exists(sc)
3258 
3259  def get_string(self):
3260  r"""get_string(TriggerKey self) -> std::string const"""
3261  return _IMP_kernel.TriggerKey_get_string(self)
3262 
3263  def __cmp__(self, o):
3264  r"""__cmp__(TriggerKey self, TriggerKey o) -> int"""
3265  return _IMP_kernel.TriggerKey___cmp__(self, o)
3266 
3267  def __eq__(self, o):
3268  r"""__eq__(TriggerKey self, TriggerKey o) -> bool"""
3269  return _IMP_kernel.TriggerKey___eq__(self, o)
3270 
3271  def __ne__(self, o):
3272  r"""__ne__(TriggerKey self, TriggerKey o) -> bool"""
3273  return _IMP_kernel.TriggerKey___ne__(self, o)
3274 
3275  def __lt__(self, o):
3276  r"""__lt__(TriggerKey self, TriggerKey o) -> bool"""
3277  return _IMP_kernel.TriggerKey___lt__(self, o)
3278 
3279  def __gt__(self, o):
3280  r"""__gt__(TriggerKey self, TriggerKey o) -> bool"""
3281  return _IMP_kernel.TriggerKey___gt__(self, o)
3282 
3283  def __ge__(self, o):
3284  r"""__ge__(TriggerKey self, TriggerKey o) -> bool"""
3285  return _IMP_kernel.TriggerKey___ge__(self, o)
3286 
3287  def __le__(self, o):
3288  r"""__le__(TriggerKey self, TriggerKey o) -> bool"""
3289  return _IMP_kernel.TriggerKey___le__(self, o)
3290 
3291  def __hash__(self):
3292  r"""__hash__(TriggerKey self) -> std::size_t"""
3293  return _IMP_kernel.TriggerKey___hash__(self)
3294 
3295  def show(self, *args):
3296  r"""show(TriggerKey self, _ostream out=std::cout)"""
3297  return _IMP_kernel.TriggerKey_show(self, *args)
3298 
3299  @staticmethod
3300  def add_alias(old_key, new_name):
3301  r"""add_alias(TriggerKey old_key, std::string new_name) -> TriggerKey"""
3302  return _IMP_kernel.TriggerKey_add_alias(old_key, new_name)
3303 
3304  @staticmethod
3305  def get_number_of_keys():
3306  r"""get_number_of_keys() -> unsigned int"""
3307  return _IMP_kernel.TriggerKey_get_number_of_keys()
3308 
3309  def get_index(self):
3310  r"""get_index(TriggerKey self) -> unsigned int"""
3311  return _IMP_kernel.TriggerKey_get_index(self)
3312 
3313  @staticmethod
3314  def show_all(out):
3315  r"""show_all(_ostream out)"""
3316  return _IMP_kernel.TriggerKey_show_all(out)
3317 
3318  @staticmethod
3319  def get_all_strings():
3320  r"""get_all_strings() -> IMP::Vector< std::string >"""
3321  return _IMP_kernel.TriggerKey_get_all_strings()
3322 
3323  @staticmethod
3324  def get_number_unique():
3325  r"""get_number_unique() -> unsigned int"""
3326  return _IMP_kernel.TriggerKey_get_number_unique()
3327 
3328  def __str__(self):
3329  r"""__str__(TriggerKey self) -> std::string"""
3330  return _IMP_kernel.TriggerKey___str__(self)
3331 
3332  def __repr__(self):
3333  r"""__repr__(TriggerKey self) -> std::string"""
3334  return _IMP_kernel.TriggerKey___repr__(self)
3335  __swig_destroy__ = _IMP_kernel.delete_TriggerKey
3336 
3337 # Register TriggerKey in _IMP_kernel:
3338 _IMP_kernel.TriggerKey_swigregister(TriggerKey)
3339 class ParticleIndex(object):
3340  r"""Proxy of C++ IMP::Index< IMP::ParticleIndexTag > class."""
3341 
3342  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
3343 
3344  def __init__(self, *args):
3345  r"""
3346  __init__(ParticleIndex self, int i) -> ParticleIndex
3347  __init__(ParticleIndex self) -> ParticleIndex
3348  """
3349  _IMP_kernel.ParticleIndex_swiginit(self, _IMP_kernel.new_ParticleIndex(*args))
3350 
3351  def get_index(self):
3352  r"""get_index(ParticleIndex self) -> int"""
3353  return _IMP_kernel.ParticleIndex_get_index(self)
3354 
3355  def __cmp__(self, o):
3356  r"""__cmp__(ParticleIndex self, ParticleIndex o) -> int"""
3357  return _IMP_kernel.ParticleIndex___cmp__(self, o)
3358 
3359  def __eq__(self, o):
3360  r"""__eq__(ParticleIndex self, ParticleIndex o) -> bool"""
3361  return _IMP_kernel.ParticleIndex___eq__(self, o)
3362 
3363  def __ne__(self, o):
3364  r"""__ne__(ParticleIndex self, ParticleIndex o) -> bool"""
3365  return _IMP_kernel.ParticleIndex___ne__(self, o)
3366 
3367  def __lt__(self, o):
3368  r"""__lt__(ParticleIndex self, ParticleIndex o) -> bool"""
3369  return _IMP_kernel.ParticleIndex___lt__(self, o)
3370 
3371  def __gt__(self, o):
3372  r"""__gt__(ParticleIndex self, ParticleIndex o) -> bool"""
3373  return _IMP_kernel.ParticleIndex___gt__(self, o)
3374 
3375  def __ge__(self, o):
3376  r"""__ge__(ParticleIndex self, ParticleIndex o) -> bool"""
3377  return _IMP_kernel.ParticleIndex___ge__(self, o)
3378 
3379  def __le__(self, o):
3380  r"""__le__(ParticleIndex self, ParticleIndex o) -> bool"""
3381  return _IMP_kernel.ParticleIndex___le__(self, o)
3382 
3383  def show(self, *args):
3384  r"""show(ParticleIndex self, _ostream out=std::cout)"""
3385  return _IMP_kernel.ParticleIndex_show(self, *args)
3386 
3387  def __hash__(self):
3388  r"""__hash__(ParticleIndex self) -> std::size_t"""
3389  return _IMP_kernel.ParticleIndex___hash__(self)
3390 
3391  def __str__(self):
3392  r"""__str__(ParticleIndex self) -> std::string"""
3393  return _IMP_kernel.ParticleIndex___str__(self)
3394 
3395  def __repr__(self):
3396  r"""__repr__(ParticleIndex self) -> std::string"""
3397  return _IMP_kernel.ParticleIndex___repr__(self)
3398  __swig_destroy__ = _IMP_kernel.delete_ParticleIndex
3399 
3400 # Register ParticleIndex in _IMP_kernel:
3401 _IMP_kernel.ParticleIndex_swigregister(ParticleIndex)
3402 class FloatsKey(_Value):
3403  r"""Proxy of C++ IMP::Key< 10 > class."""
3404 
3405  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
3406 
3407  def __init__(self, *args):
3408  r"""
3409  __init__(FloatsKey self) -> FloatsKey
3410  __init__(FloatsKey self, std::string const & c, bool is_implicit_add_permitted=True) -> FloatsKey
3411  __init__(FloatsKey self, unsigned int i) -> FloatsKey
3412  """
3413  _IMP_kernel.FloatsKey_swiginit(self, _IMP_kernel.new_FloatsKey(*args))
3414 
3415  @staticmethod
3416  def add_key(sc):
3417  r"""add_key(std::string sc) -> unsigned int"""
3418  return _IMP_kernel.FloatsKey_add_key(sc)
3419 
3420  @staticmethod
3421  def get_key_exists(sc):
3422  r"""get_key_exists(std::string sc) -> bool"""
3423  return _IMP_kernel.FloatsKey_get_key_exists(sc)
3424 
3425  def get_string(self):
3426  r"""get_string(FloatsKey self) -> std::string const"""
3427  return _IMP_kernel.FloatsKey_get_string(self)
3428 
3429  def __cmp__(self, o):
3430  r"""__cmp__(FloatsKey self, FloatsKey o) -> int"""
3431  return _IMP_kernel.FloatsKey___cmp__(self, o)
3432 
3433  def __eq__(self, o):
3434  r"""__eq__(FloatsKey self, FloatsKey o) -> bool"""
3435  return _IMP_kernel.FloatsKey___eq__(self, o)
3436 
3437  def __ne__(self, o):
3438  r"""__ne__(FloatsKey self, FloatsKey o) -> bool"""
3439  return _IMP_kernel.FloatsKey___ne__(self, o)
3440 
3441  def __lt__(self, o):
3442  r"""__lt__(FloatsKey self, FloatsKey o) -> bool"""
3443  return _IMP_kernel.FloatsKey___lt__(self, o)
3444 
3445  def __gt__(self, o):
3446  r"""__gt__(FloatsKey self, FloatsKey o) -> bool"""
3447  return _IMP_kernel.FloatsKey___gt__(self, o)
3448 
3449  def __ge__(self, o):
3450  r"""__ge__(FloatsKey self, FloatsKey o) -> bool"""
3451  return _IMP_kernel.FloatsKey___ge__(self, o)
3452 
3453  def __le__(self, o):
3454  r"""__le__(FloatsKey self, FloatsKey o) -> bool"""
3455  return _IMP_kernel.FloatsKey___le__(self, o)
3456 
3457  def __hash__(self):
3458  r"""__hash__(FloatsKey self) -> std::size_t"""
3459  return _IMP_kernel.FloatsKey___hash__(self)
3460 
3461  def show(self, *args):
3462  r"""show(FloatsKey self, _ostream out=std::cout)"""
3463  return _IMP_kernel.FloatsKey_show(self, *args)
3464 
3465  @staticmethod
3466  def add_alias(old_key, new_name):
3467  r"""add_alias(FloatsKey old_key, std::string new_name) -> FloatsKey"""
3468  return _IMP_kernel.FloatsKey_add_alias(old_key, new_name)
3469 
3470  @staticmethod
3471  def get_number_of_keys():
3472  r"""get_number_of_keys() -> unsigned int"""
3473  return _IMP_kernel.FloatsKey_get_number_of_keys()
3474 
3475  def get_index(self):
3476  r"""get_index(FloatsKey self) -> unsigned int"""
3477  return _IMP_kernel.FloatsKey_get_index(self)
3478 
3479  @staticmethod
3480  def show_all(out):
3481  r"""show_all(_ostream out)"""
3482  return _IMP_kernel.FloatsKey_show_all(out)
3483 
3484  @staticmethod
3485  def get_all_strings():
3486  r"""get_all_strings() -> IMP::Vector< std::string >"""
3487  return _IMP_kernel.FloatsKey_get_all_strings()
3488 
3489  @staticmethod
3490  def get_number_unique():
3491  r"""get_number_unique() -> unsigned int"""
3492  return _IMP_kernel.FloatsKey_get_number_unique()
3493 
3494  def __str__(self):
3495  r"""__str__(FloatsKey self) -> std::string"""
3496  return _IMP_kernel.FloatsKey___str__(self)
3497 
3498  def __repr__(self):
3499  r"""__repr__(FloatsKey self) -> std::string"""
3500  return _IMP_kernel.FloatsKey___repr__(self)
3501  __swig_destroy__ = _IMP_kernel.delete_FloatsKey
3502 
3503 # Register FloatsKey in _IMP_kernel:
3504 _IMP_kernel.FloatsKey_swigregister(FloatsKey)
3505 class SparseStringKey(_Value):
3506  r"""Proxy of C++ IMP::Key< 12 > class."""
3507 
3508  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
3509 
3510  def __init__(self, *args):
3511  r"""
3512  __init__(SparseStringKey self) -> SparseStringKey
3513  __init__(SparseStringKey self, std::string const & c, bool is_implicit_add_permitted=True) -> SparseStringKey
3514  __init__(SparseStringKey self, unsigned int i) -> SparseStringKey
3515  """
3516  _IMP_kernel.SparseStringKey_swiginit(self, _IMP_kernel.new_SparseStringKey(*args))
3517 
3518  @staticmethod
3519  def add_key(sc):
3520  r"""add_key(std::string sc) -> unsigned int"""
3521  return _IMP_kernel.SparseStringKey_add_key(sc)
3522 
3523  @staticmethod
3524  def get_key_exists(sc):
3525  r"""get_key_exists(std::string sc) -> bool"""
3526  return _IMP_kernel.SparseStringKey_get_key_exists(sc)
3527 
3528  def get_string(self):
3529  r"""get_string(SparseStringKey self) -> std::string const"""
3530  return _IMP_kernel.SparseStringKey_get_string(self)
3531 
3532  def __cmp__(self, o):
3533  r"""__cmp__(SparseStringKey self, SparseStringKey o) -> int"""
3534  return _IMP_kernel.SparseStringKey___cmp__(self, o)
3535 
3536  def __eq__(self, o):
3537  r"""__eq__(SparseStringKey self, SparseStringKey o) -> bool"""
3538  return _IMP_kernel.SparseStringKey___eq__(self, o)
3539 
3540  def __ne__(self, o):
3541  r"""__ne__(SparseStringKey self, SparseStringKey o) -> bool"""
3542  return _IMP_kernel.SparseStringKey___ne__(self, o)
3543 
3544  def __lt__(self, o):
3545  r"""__lt__(SparseStringKey self, SparseStringKey o) -> bool"""
3546  return _IMP_kernel.SparseStringKey___lt__(self, o)
3547 
3548  def __gt__(self, o):
3549  r"""__gt__(SparseStringKey self, SparseStringKey o) -> bool"""
3550  return _IMP_kernel.SparseStringKey___gt__(self, o)
3551 
3552  def __ge__(self, o):
3553  r"""__ge__(SparseStringKey self, SparseStringKey o) -> bool"""
3554  return _IMP_kernel.SparseStringKey___ge__(self, o)
3555 
3556  def __le__(self, o):
3557  r"""__le__(SparseStringKey self, SparseStringKey o) -> bool"""
3558  return _IMP_kernel.SparseStringKey___le__(self, o)
3559 
3560  def __hash__(self):
3561  r"""__hash__(SparseStringKey self) -> std::size_t"""
3562  return _IMP_kernel.SparseStringKey___hash__(self)
3563 
3564  def show(self, *args):
3565  r"""show(SparseStringKey self, _ostream out=std::cout)"""
3566  return _IMP_kernel.SparseStringKey_show(self, *args)
3567 
3568  @staticmethod
3569  def add_alias(old_key, new_name):
3570  r"""add_alias(SparseStringKey old_key, std::string new_name) -> SparseStringKey"""
3571  return _IMP_kernel.SparseStringKey_add_alias(old_key, new_name)
3572 
3573  @staticmethod
3574  def get_number_of_keys():
3575  r"""get_number_of_keys() -> unsigned int"""
3576  return _IMP_kernel.SparseStringKey_get_number_of_keys()
3577 
3578  def get_index(self):
3579  r"""get_index(SparseStringKey self) -> unsigned int"""
3580  return _IMP_kernel.SparseStringKey_get_index(self)
3581 
3582  @staticmethod
3583  def show_all(out):
3584  r"""show_all(_ostream out)"""
3585  return _IMP_kernel.SparseStringKey_show_all(out)
3586 
3587  @staticmethod
3588  def get_all_strings():
3589  r"""get_all_strings() -> IMP::Vector< std::string >"""
3590  return _IMP_kernel.SparseStringKey_get_all_strings()
3591 
3592  @staticmethod
3593  def get_number_unique():
3594  r"""get_number_unique() -> unsigned int"""
3595  return _IMP_kernel.SparseStringKey_get_number_unique()
3596 
3597  def __str__(self):
3598  r"""__str__(SparseStringKey self) -> std::string"""
3599  return _IMP_kernel.SparseStringKey___str__(self)
3600 
3601  def __repr__(self):
3602  r"""__repr__(SparseStringKey self) -> std::string"""
3603  return _IMP_kernel.SparseStringKey___repr__(self)
3604  __swig_destroy__ = _IMP_kernel.delete_SparseStringKey
3605 
3606 # Register SparseStringKey in _IMP_kernel:
3607 _IMP_kernel.SparseStringKey_swigregister(SparseStringKey)
3608 class SparseIntKey(_Value):
3609  r"""Proxy of C++ IMP::Key< 13 > class."""
3610 
3611  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
3612 
3613  def __init__(self, *args):
3614  r"""
3615  __init__(SparseIntKey self) -> SparseIntKey
3616  __init__(SparseIntKey self, std::string const & c, bool is_implicit_add_permitted=True) -> SparseIntKey
3617  __init__(SparseIntKey self, unsigned int i) -> SparseIntKey
3618  """
3619  _IMP_kernel.SparseIntKey_swiginit(self, _IMP_kernel.new_SparseIntKey(*args))
3620 
3621  @staticmethod
3622  def add_key(sc):
3623  r"""add_key(std::string sc) -> unsigned int"""
3624  return _IMP_kernel.SparseIntKey_add_key(sc)
3625 
3626  @staticmethod
3627  def get_key_exists(sc):
3628  r"""get_key_exists(std::string sc) -> bool"""
3629  return _IMP_kernel.SparseIntKey_get_key_exists(sc)
3630 
3631  def get_string(self):
3632  r"""get_string(SparseIntKey self) -> std::string const"""
3633  return _IMP_kernel.SparseIntKey_get_string(self)
3634 
3635  def __cmp__(self, o):
3636  r"""__cmp__(SparseIntKey self, SparseIntKey o) -> int"""
3637  return _IMP_kernel.SparseIntKey___cmp__(self, o)
3638 
3639  def __eq__(self, o):
3640  r"""__eq__(SparseIntKey self, SparseIntKey o) -> bool"""
3641  return _IMP_kernel.SparseIntKey___eq__(self, o)
3642 
3643  def __ne__(self, o):
3644  r"""__ne__(SparseIntKey self, SparseIntKey o) -> bool"""
3645  return _IMP_kernel.SparseIntKey___ne__(self, o)
3646 
3647  def __lt__(self, o):
3648  r"""__lt__(SparseIntKey self, SparseIntKey o) -> bool"""
3649  return _IMP_kernel.SparseIntKey___lt__(self, o)
3650 
3651  def __gt__(self, o):
3652  r"""__gt__(SparseIntKey self, SparseIntKey o) -> bool"""
3653  return _IMP_kernel.SparseIntKey___gt__(self, o)
3654 
3655  def __ge__(self, o):
3656  r"""__ge__(SparseIntKey self, SparseIntKey o) -> bool"""
3657  return _IMP_kernel.SparseIntKey___ge__(self, o)
3658 
3659  def __le__(self, o):
3660  r"""__le__(SparseIntKey self, SparseIntKey o) -> bool"""
3661  return _IMP_kernel.SparseIntKey___le__(self, o)
3662 
3663  def __hash__(self):
3664  r"""__hash__(SparseIntKey self) -> std::size_t"""
3665  return _IMP_kernel.SparseIntKey___hash__(self)
3666 
3667  def show(self, *args):
3668  r"""show(SparseIntKey self, _ostream out=std::cout)"""
3669  return _IMP_kernel.SparseIntKey_show(self, *args)
3670 
3671  @staticmethod
3672  def add_alias(old_key, new_name):
3673  r"""add_alias(SparseIntKey old_key, std::string new_name) -> SparseIntKey"""
3674  return _IMP_kernel.SparseIntKey_add_alias(old_key, new_name)
3675 
3676  @staticmethod
3677  def get_number_of_keys():
3678  r"""get_number_of_keys() -> unsigned int"""
3679  return _IMP_kernel.SparseIntKey_get_number_of_keys()
3680 
3681  def get_index(self):
3682  r"""get_index(SparseIntKey self) -> unsigned int"""
3683  return _IMP_kernel.SparseIntKey_get_index(self)
3684 
3685  @staticmethod
3686  def show_all(out):
3687  r"""show_all(_ostream out)"""
3688  return _IMP_kernel.SparseIntKey_show_all(out)
3689 
3690  @staticmethod
3691  def get_all_strings():
3692  r"""get_all_strings() -> IMP::Vector< std::string >"""
3693  return _IMP_kernel.SparseIntKey_get_all_strings()
3694 
3695  @staticmethod
3696  def get_number_unique():
3697  r"""get_number_unique() -> unsigned int"""
3698  return _IMP_kernel.SparseIntKey_get_number_unique()
3699 
3700  def __str__(self):
3701  r"""__str__(SparseIntKey self) -> std::string"""
3702  return _IMP_kernel.SparseIntKey___str__(self)
3703 
3704  def __repr__(self):
3705  r"""__repr__(SparseIntKey self) -> std::string"""
3706  return _IMP_kernel.SparseIntKey___repr__(self)
3707  __swig_destroy__ = _IMP_kernel.delete_SparseIntKey
3708 
3709 # Register SparseIntKey in _IMP_kernel:
3710 _IMP_kernel.SparseIntKey_swigregister(SparseIntKey)
3711 class SparseFloatKey(_Value):
3712  r"""Proxy of C++ IMP::Key< 14 > class."""
3713 
3714  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
3715 
3716  def __init__(self, *args):
3717  r"""
3718  __init__(SparseFloatKey self) -> SparseFloatKey
3719  __init__(SparseFloatKey self, std::string const & c, bool is_implicit_add_permitted=True) -> SparseFloatKey
3720  __init__(SparseFloatKey self, unsigned int i) -> SparseFloatKey
3721  """
3722  _IMP_kernel.SparseFloatKey_swiginit(self, _IMP_kernel.new_SparseFloatKey(*args))
3723 
3724  @staticmethod
3725  def add_key(sc):
3726  r"""add_key(std::string sc) -> unsigned int"""
3727  return _IMP_kernel.SparseFloatKey_add_key(sc)
3728 
3729  @staticmethod
3730  def get_key_exists(sc):
3731  r"""get_key_exists(std::string sc) -> bool"""
3732  return _IMP_kernel.SparseFloatKey_get_key_exists(sc)
3733 
3734  def get_string(self):
3735  r"""get_string(SparseFloatKey self) -> std::string const"""
3736  return _IMP_kernel.SparseFloatKey_get_string(self)
3737 
3738  def __cmp__(self, o):
3739  r"""__cmp__(SparseFloatKey self, SparseFloatKey o) -> int"""
3740  return _IMP_kernel.SparseFloatKey___cmp__(self, o)
3741 
3742  def __eq__(self, o):
3743  r"""__eq__(SparseFloatKey self, SparseFloatKey o) -> bool"""
3744  return _IMP_kernel.SparseFloatKey___eq__(self, o)
3745 
3746  def __ne__(self, o):
3747  r"""__ne__(SparseFloatKey self, SparseFloatKey o) -> bool"""
3748  return _IMP_kernel.SparseFloatKey___ne__(self, o)
3749 
3750  def __lt__(self, o):
3751  r"""__lt__(SparseFloatKey self, SparseFloatKey o) -> bool"""
3752  return _IMP_kernel.SparseFloatKey___lt__(self, o)
3753 
3754  def __gt__(self, o):
3755  r"""__gt__(SparseFloatKey self, SparseFloatKey o) -> bool"""
3756  return _IMP_kernel.SparseFloatKey___gt__(self, o)
3757 
3758  def __ge__(self, o):
3759  r"""__ge__(SparseFloatKey self, SparseFloatKey o) -> bool"""
3760  return _IMP_kernel.SparseFloatKey___ge__(self, o)
3761 
3762  def __le__(self, o):
3763  r"""__le__(SparseFloatKey self, SparseFloatKey o) -> bool"""
3764  return _IMP_kernel.SparseFloatKey___le__(self, o)
3765 
3766  def __hash__(self):
3767  r"""__hash__(SparseFloatKey self) -> std::size_t"""
3768  return _IMP_kernel.SparseFloatKey___hash__(self)
3769 
3770  def show(self, *args):
3771  r"""show(SparseFloatKey self, _ostream out=std::cout)"""
3772  return _IMP_kernel.SparseFloatKey_show(self, *args)
3773 
3774  @staticmethod
3775  def add_alias(old_key, new_name):
3776  r"""add_alias(SparseFloatKey old_key, std::string new_name) -> SparseFloatKey"""
3777  return _IMP_kernel.SparseFloatKey_add_alias(old_key, new_name)
3778 
3779  @staticmethod
3780  def get_number_of_keys():
3781  r"""get_number_of_keys() -> unsigned int"""
3782  return _IMP_kernel.SparseFloatKey_get_number_of_keys()
3783 
3784  def get_index(self):
3785  r"""get_index(SparseFloatKey self) -> unsigned int"""
3786  return _IMP_kernel.SparseFloatKey_get_index(self)
3787 
3788  @staticmethod
3789  def show_all(out):
3790  r"""show_all(_ostream out)"""
3791  return _IMP_kernel.SparseFloatKey_show_all(out)
3792 
3793  @staticmethod
3794  def get_all_strings():
3795  r"""get_all_strings() -> IMP::Vector< std::string >"""
3796  return _IMP_kernel.SparseFloatKey_get_all_strings()
3797 
3798  @staticmethod
3799  def get_number_unique():
3800  r"""get_number_unique() -> unsigned int"""
3801  return _IMP_kernel.SparseFloatKey_get_number_unique()
3802 
3803  def __str__(self):
3804  r"""__str__(SparseFloatKey self) -> std::string"""
3805  return _IMP_kernel.SparseFloatKey___str__(self)
3806 
3807  def __repr__(self):
3808  r"""__repr__(SparseFloatKey self) -> std::string"""
3809  return _IMP_kernel.SparseFloatKey___repr__(self)
3810  __swig_destroy__ = _IMP_kernel.delete_SparseFloatKey
3811 
3812 # Register SparseFloatKey in _IMP_kernel:
3813 _IMP_kernel.SparseFloatKey_swigregister(SparseFloatKey)
3814 class SparseParticleIndexKey(_Value):
3815  r"""Proxy of C++ IMP::Key< 15 > class."""
3816 
3817  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
3818 
3819  def __init__(self, *args):
3820  r"""
3821  __init__(SparseParticleIndexKey self) -> SparseParticleIndexKey
3822  __init__(SparseParticleIndexKey self, std::string const & c, bool is_implicit_add_permitted=True) -> SparseParticleIndexKey
3823  __init__(SparseParticleIndexKey self, unsigned int i) -> SparseParticleIndexKey
3824  """
3825  _IMP_kernel.SparseParticleIndexKey_swiginit(self, _IMP_kernel.new_SparseParticleIndexKey(*args))
3826 
3827  @staticmethod
3828  def add_key(sc):
3829  r"""add_key(std::string sc) -> unsigned int"""
3830  return _IMP_kernel.SparseParticleIndexKey_add_key(sc)
3831 
3832  @staticmethod
3833  def get_key_exists(sc):
3834  r"""get_key_exists(std::string sc) -> bool"""
3835  return _IMP_kernel.SparseParticleIndexKey_get_key_exists(sc)
3836 
3837  def get_string(self):
3838  r"""get_string(SparseParticleIndexKey self) -> std::string const"""
3839  return _IMP_kernel.SparseParticleIndexKey_get_string(self)
3840 
3841  def __cmp__(self, o):
3842  r"""__cmp__(SparseParticleIndexKey self, SparseParticleIndexKey o) -> int"""
3843  return _IMP_kernel.SparseParticleIndexKey___cmp__(self, o)
3844 
3845  def __eq__(self, o):
3846  r"""__eq__(SparseParticleIndexKey self, SparseParticleIndexKey o) -> bool"""
3847  return _IMP_kernel.SparseParticleIndexKey___eq__(self, o)
3848 
3849  def __ne__(self, o):
3850  r"""__ne__(SparseParticleIndexKey self, SparseParticleIndexKey o) -> bool"""
3851  return _IMP_kernel.SparseParticleIndexKey___ne__(self, o)
3852 
3853  def __lt__(self, o):
3854  r"""__lt__(SparseParticleIndexKey self, SparseParticleIndexKey o) -> bool"""
3855  return _IMP_kernel.SparseParticleIndexKey___lt__(self, o)
3856 
3857  def __gt__(self, o):
3858  r"""__gt__(SparseParticleIndexKey self, SparseParticleIndexKey o) -> bool"""
3859  return _IMP_kernel.SparseParticleIndexKey___gt__(self, o)
3860 
3861  def __ge__(self, o):
3862  r"""__ge__(SparseParticleIndexKey self, SparseParticleIndexKey o) -> bool"""
3863  return _IMP_kernel.SparseParticleIndexKey___ge__(self, o)
3864 
3865  def __le__(self, o):
3866  r"""__le__(SparseParticleIndexKey self, SparseParticleIndexKey o) -> bool"""
3867  return _IMP_kernel.SparseParticleIndexKey___le__(self, o)
3868 
3869  def __hash__(self):
3870  r"""__hash__(SparseParticleIndexKey self) -> std::size_t"""
3871  return _IMP_kernel.SparseParticleIndexKey___hash__(self)
3872 
3873  def show(self, *args):
3874  r"""show(SparseParticleIndexKey self, _ostream out=std::cout)"""
3875  return _IMP_kernel.SparseParticleIndexKey_show(self, *args)
3876 
3877  @staticmethod
3878  def add_alias(old_key, new_name):
3879  r"""add_alias(SparseParticleIndexKey old_key, std::string new_name) -> SparseParticleIndexKey"""
3880  return _IMP_kernel.SparseParticleIndexKey_add_alias(old_key, new_name)
3881 
3882  @staticmethod
3883  def get_number_of_keys():
3884  r"""get_number_of_keys() -> unsigned int"""
3885  return _IMP_kernel.SparseParticleIndexKey_get_number_of_keys()
3886 
3887  def get_index(self):
3888  r"""get_index(SparseParticleIndexKey self) -> unsigned int"""
3889  return _IMP_kernel.SparseParticleIndexKey_get_index(self)
3890 
3891  @staticmethod
3892  def show_all(out):
3893  r"""show_all(_ostream out)"""
3894  return _IMP_kernel.SparseParticleIndexKey_show_all(out)
3895 
3896  @staticmethod
3897  def get_all_strings():
3898  r"""get_all_strings() -> IMP::Vector< std::string >"""
3899  return _IMP_kernel.SparseParticleIndexKey_get_all_strings()
3900 
3901  @staticmethod
3902  def get_number_unique():
3903  r"""get_number_unique() -> unsigned int"""
3904  return _IMP_kernel.SparseParticleIndexKey_get_number_unique()
3905 
3906  def __str__(self):
3907  r"""__str__(SparseParticleIndexKey self) -> std::string"""
3908  return _IMP_kernel.SparseParticleIndexKey___str__(self)
3909 
3910  def __repr__(self):
3911  r"""__repr__(SparseParticleIndexKey self) -> std::string"""
3912  return _IMP_kernel.SparseParticleIndexKey___repr__(self)
3913  __swig_destroy__ = _IMP_kernel.delete_SparseParticleIndexKey
3914 
3915 # Register SparseParticleIndexKey in _IMP_kernel:
3916 _IMP_kernel.SparseParticleIndexKey_swigregister(SparseParticleIndexKey)
3917 class Vector3DKey(_Value):
3918  r"""Proxy of C++ IMP::Key< 16 > class."""
3919 
3920  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
3921 
3922  def __init__(self, *args):
3923  r"""
3924  __init__(Vector3DKey self) -> Vector3DKey
3925  __init__(Vector3DKey self, std::string const & c, bool is_implicit_add_permitted=True) -> Vector3DKey
3926  __init__(Vector3DKey self, unsigned int i) -> Vector3DKey
3927  """
3928  _IMP_kernel.Vector3DKey_swiginit(self, _IMP_kernel.new_Vector3DKey(*args))
3929 
3930  @staticmethod
3931  def add_key(sc):
3932  r"""add_key(std::string sc) -> unsigned int"""
3933  return _IMP_kernel.Vector3DKey_add_key(sc)
3934 
3935  @staticmethod
3936  def get_key_exists(sc):
3937  r"""get_key_exists(std::string sc) -> bool"""
3938  return _IMP_kernel.Vector3DKey_get_key_exists(sc)
3939 
3940  def get_string(self):
3941  r"""get_string(Vector3DKey self) -> std::string const"""
3942  return _IMP_kernel.Vector3DKey_get_string(self)
3943 
3944  def __cmp__(self, o):
3945  r"""__cmp__(Vector3DKey self, Vector3DKey o) -> int"""
3946  return _IMP_kernel.Vector3DKey___cmp__(self, o)
3947 
3948  def __eq__(self, o):
3949  r"""__eq__(Vector3DKey self, Vector3DKey o) -> bool"""
3950  return _IMP_kernel.Vector3DKey___eq__(self, o)
3951 
3952  def __ne__(self, o):
3953  r"""__ne__(Vector3DKey self, Vector3DKey o) -> bool"""
3954  return _IMP_kernel.Vector3DKey___ne__(self, o)
3955 
3956  def __lt__(self, o):
3957  r"""__lt__(Vector3DKey self, Vector3DKey o) -> bool"""
3958  return _IMP_kernel.Vector3DKey___lt__(self, o)
3959 
3960  def __gt__(self, o):
3961  r"""__gt__(Vector3DKey self, Vector3DKey o) -> bool"""
3962  return _IMP_kernel.Vector3DKey___gt__(self, o)
3963 
3964  def __ge__(self, o):
3965  r"""__ge__(Vector3DKey self, Vector3DKey o) -> bool"""
3966  return _IMP_kernel.Vector3DKey___ge__(self, o)
3967 
3968  def __le__(self, o):
3969  r"""__le__(Vector3DKey self, Vector3DKey o) -> bool"""
3970  return _IMP_kernel.Vector3DKey___le__(self, o)
3971 
3972  def __hash__(self):
3973  r"""__hash__(Vector3DKey self) -> std::size_t"""
3974  return _IMP_kernel.Vector3DKey___hash__(self)
3975 
3976  def show(self, *args):
3977  r"""show(Vector3DKey self, _ostream out=std::cout)"""
3978  return _IMP_kernel.Vector3DKey_show(self, *args)
3979 
3980  @staticmethod
3981  def add_alias(old_key, new_name):
3982  r"""add_alias(Vector3DKey old_key, std::string new_name) -> Vector3DKey"""
3983  return _IMP_kernel.Vector3DKey_add_alias(old_key, new_name)
3984 
3985  @staticmethod
3986  def get_number_of_keys():
3987  r"""get_number_of_keys() -> unsigned int"""
3988  return _IMP_kernel.Vector3DKey_get_number_of_keys()
3989 
3990  def get_index(self):
3991  r"""get_index(Vector3DKey self) -> unsigned int"""
3992  return _IMP_kernel.Vector3DKey_get_index(self)
3993 
3994  @staticmethod
3995  def show_all(out):
3996  r"""show_all(_ostream out)"""
3997  return _IMP_kernel.Vector3DKey_show_all(out)
3998 
3999  @staticmethod
4000  def get_all_strings():
4001  r"""get_all_strings() -> IMP::Vector< std::string >"""
4002  return _IMP_kernel.Vector3DKey_get_all_strings()
4003 
4004  @staticmethod
4005  def get_number_unique():
4006  r"""get_number_unique() -> unsigned int"""
4007  return _IMP_kernel.Vector3DKey_get_number_unique()
4008 
4009  def __str__(self):
4010  r"""__str__(Vector3DKey self) -> std::string"""
4011  return _IMP_kernel.Vector3DKey___str__(self)
4012 
4013  def __repr__(self):
4014  r"""__repr__(Vector3DKey self) -> std::string"""
4015  return _IMP_kernel.Vector3DKey___repr__(self)
4016  __swig_destroy__ = _IMP_kernel.delete_Vector3DKey
4017 
4018 # Register Vector3DKey in _IMP_kernel:
4019 _IMP_kernel.Vector3DKey_swigregister(Vector3DKey)
4020 class Vector3DDerivKey(_Value):
4021  r"""Proxy of C++ IMP::Key< 17 > class."""
4022 
4023  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
4024 
4025  def __init__(self, *args):
4026  r"""
4027  __init__(Vector3DDerivKey self) -> Vector3DDerivKey
4028  __init__(Vector3DDerivKey self, std::string const & c, bool is_implicit_add_permitted=True) -> Vector3DDerivKey
4029  __init__(Vector3DDerivKey self, unsigned int i) -> Vector3DDerivKey
4030  """
4031  _IMP_kernel.Vector3DDerivKey_swiginit(self, _IMP_kernel.new_Vector3DDerivKey(*args))
4032 
4033  @staticmethod
4034  def add_key(sc):
4035  r"""add_key(std::string sc) -> unsigned int"""
4036  return _IMP_kernel.Vector3DDerivKey_add_key(sc)
4037 
4038  @staticmethod
4039  def get_key_exists(sc):
4040  r"""get_key_exists(std::string sc) -> bool"""
4041  return _IMP_kernel.Vector3DDerivKey_get_key_exists(sc)
4042 
4043  def get_string(self):
4044  r"""get_string(Vector3DDerivKey self) -> std::string const"""
4045  return _IMP_kernel.Vector3DDerivKey_get_string(self)
4046 
4047  def __cmp__(self, o):
4048  r"""__cmp__(Vector3DDerivKey self, Vector3DDerivKey o) -> int"""
4049  return _IMP_kernel.Vector3DDerivKey___cmp__(self, o)
4050 
4051  def __eq__(self, o):
4052  r"""__eq__(Vector3DDerivKey self, Vector3DDerivKey o) -> bool"""
4053  return _IMP_kernel.Vector3DDerivKey___eq__(self, o)
4054 
4055  def __ne__(self, o):
4056  r"""__ne__(Vector3DDerivKey self, Vector3DDerivKey o) -> bool"""
4057  return _IMP_kernel.Vector3DDerivKey___ne__(self, o)
4058 
4059  def __lt__(self, o):
4060  r"""__lt__(Vector3DDerivKey self, Vector3DDerivKey o) -> bool"""
4061  return _IMP_kernel.Vector3DDerivKey___lt__(self, o)
4062 
4063  def __gt__(self, o):
4064  r"""__gt__(Vector3DDerivKey self, Vector3DDerivKey o) -> bool"""
4065  return _IMP_kernel.Vector3DDerivKey___gt__(self, o)
4066 
4067  def __ge__(self, o):
4068  r"""__ge__(Vector3DDerivKey self, Vector3DDerivKey o) -> bool"""
4069  return _IMP_kernel.Vector3DDerivKey___ge__(self, o)
4070 
4071  def __le__(self, o):
4072  r"""__le__(Vector3DDerivKey self, Vector3DDerivKey o) -> bool"""
4073  return _IMP_kernel.Vector3DDerivKey___le__(self, o)
4074 
4075  def __hash__(self):
4076  r"""__hash__(Vector3DDerivKey self) -> std::size_t"""
4077  return _IMP_kernel.Vector3DDerivKey___hash__(self)
4078 
4079  def show(self, *args):
4080  r"""show(Vector3DDerivKey self, _ostream out=std::cout)"""
4081  return _IMP_kernel.Vector3DDerivKey_show(self, *args)
4082 
4083  @staticmethod
4084  def add_alias(old_key, new_name):
4085  r"""add_alias(Vector3DDerivKey old_key, std::string new_name) -> Vector3DDerivKey"""
4086  return _IMP_kernel.Vector3DDerivKey_add_alias(old_key, new_name)
4087 
4088  @staticmethod
4089  def get_number_of_keys():
4090  r"""get_number_of_keys() -> unsigned int"""
4091  return _IMP_kernel.Vector3DDerivKey_get_number_of_keys()
4092 
4093  def get_index(self):
4094  r"""get_index(Vector3DDerivKey self) -> unsigned int"""
4095  return _IMP_kernel.Vector3DDerivKey_get_index(self)
4096 
4097  @staticmethod
4098  def show_all(out):
4099  r"""show_all(_ostream out)"""
4100  return _IMP_kernel.Vector3DDerivKey_show_all(out)
4101 
4102  @staticmethod
4103  def get_all_strings():
4104  r"""get_all_strings() -> IMP::Vector< std::string >"""
4105  return _IMP_kernel.Vector3DDerivKey_get_all_strings()
4106 
4107  @staticmethod
4108  def get_number_unique():
4109  r"""get_number_unique() -> unsigned int"""
4110  return _IMP_kernel.Vector3DDerivKey_get_number_unique()
4111 
4112  def __str__(self):
4113  r"""__str__(Vector3DDerivKey self) -> std::string"""
4114  return _IMP_kernel.Vector3DDerivKey___str__(self)
4115 
4116  def __repr__(self):
4117  r"""__repr__(Vector3DDerivKey self) -> std::string"""
4118  return _IMP_kernel.Vector3DDerivKey___repr__(self)
4119  __swig_destroy__ = _IMP_kernel.delete_Vector3DDerivKey
4120 
4121 # Register Vector3DDerivKey in _IMP_kernel:
4122 _IMP_kernel.Vector3DDerivKey_swigregister(Vector3DDerivKey)
4123 class Vector4DKey(_Value):
4124  r"""Proxy of C++ IMP::Key< 18 > class."""
4125 
4126  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
4127 
4128  def __init__(self, *args):
4129  r"""
4130  __init__(Vector4DKey self) -> Vector4DKey
4131  __init__(Vector4DKey self, std::string const & c, bool is_implicit_add_permitted=True) -> Vector4DKey
4132  __init__(Vector4DKey self, unsigned int i) -> Vector4DKey
4133  """
4134  _IMP_kernel.Vector4DKey_swiginit(self, _IMP_kernel.new_Vector4DKey(*args))
4135 
4136  @staticmethod
4137  def add_key(sc):
4138  r"""add_key(std::string sc) -> unsigned int"""
4139  return _IMP_kernel.Vector4DKey_add_key(sc)
4140 
4141  @staticmethod
4142  def get_key_exists(sc):
4143  r"""get_key_exists(std::string sc) -> bool"""
4144  return _IMP_kernel.Vector4DKey_get_key_exists(sc)
4145 
4146  def get_string(self):
4147  r"""get_string(Vector4DKey self) -> std::string const"""
4148  return _IMP_kernel.Vector4DKey_get_string(self)
4149 
4150  def __cmp__(self, o):
4151  r"""__cmp__(Vector4DKey self, Vector4DKey o) -> int"""
4152  return _IMP_kernel.Vector4DKey___cmp__(self, o)
4153 
4154  def __eq__(self, o):
4155  r"""__eq__(Vector4DKey self, Vector4DKey o) -> bool"""
4156  return _IMP_kernel.Vector4DKey___eq__(self, o)
4157 
4158  def __ne__(self, o):
4159  r"""__ne__(Vector4DKey self, Vector4DKey o) -> bool"""
4160  return _IMP_kernel.Vector4DKey___ne__(self, o)
4161 
4162  def __lt__(self, o):
4163  r"""__lt__(Vector4DKey self, Vector4DKey o) -> bool"""
4164  return _IMP_kernel.Vector4DKey___lt__(self, o)
4165 
4166  def __gt__(self, o):
4167  r"""__gt__(Vector4DKey self, Vector4DKey o) -> bool"""
4168  return _IMP_kernel.Vector4DKey___gt__(self, o)
4169 
4170  def __ge__(self, o):
4171  r"""__ge__(Vector4DKey self, Vector4DKey o) -> bool"""
4172  return _IMP_kernel.Vector4DKey___ge__(self, o)
4173 
4174  def __le__(self, o):
4175  r"""__le__(Vector4DKey self, Vector4DKey o) -> bool"""
4176  return _IMP_kernel.Vector4DKey___le__(self, o)
4177 
4178  def __hash__(self):
4179  r"""__hash__(Vector4DKey self) -> std::size_t"""
4180  return _IMP_kernel.Vector4DKey___hash__(self)
4181 
4182  def show(self, *args):
4183  r"""show(Vector4DKey self, _ostream out=std::cout)"""
4184  return _IMP_kernel.Vector4DKey_show(self, *args)
4185 
4186  @staticmethod
4187  def add_alias(old_key, new_name):
4188  r"""add_alias(Vector4DKey old_key, std::string new_name) -> Vector4DKey"""
4189  return _IMP_kernel.Vector4DKey_add_alias(old_key, new_name)
4190 
4191  @staticmethod
4192  def get_number_of_keys():
4193  r"""get_number_of_keys() -> unsigned int"""
4194  return _IMP_kernel.Vector4DKey_get_number_of_keys()
4195 
4196  def get_index(self):
4197  r"""get_index(Vector4DKey self) -> unsigned int"""
4198  return _IMP_kernel.Vector4DKey_get_index(self)
4199 
4200  @staticmethod
4201  def show_all(out):
4202  r"""show_all(_ostream out)"""
4203  return _IMP_kernel.Vector4DKey_show_all(out)
4204 
4205  @staticmethod
4206  def get_all_strings():
4207  r"""get_all_strings() -> IMP::Vector< std::string >"""
4208  return _IMP_kernel.Vector4DKey_get_all_strings()
4209 
4210  @staticmethod
4211  def get_number_unique():
4212  r"""get_number_unique() -> unsigned int"""
4213  return _IMP_kernel.Vector4DKey_get_number_unique()
4214 
4215  def __str__(self):
4216  r"""__str__(Vector4DKey self) -> std::string"""
4217  return _IMP_kernel.Vector4DKey___str__(self)
4218 
4219  def __repr__(self):
4220  r"""__repr__(Vector4DKey self) -> std::string"""
4221  return _IMP_kernel.Vector4DKey___repr__(self)
4222  __swig_destroy__ = _IMP_kernel.delete_Vector4DKey
4223 
4224 # Register Vector4DKey in _IMP_kernel:
4225 _IMP_kernel.Vector4DKey_swigregister(Vector4DKey)
4226 class Vector4DDerivKey(_Value):
4227  r"""Proxy of C++ IMP::Key< 19 > class."""
4228 
4229  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
4230 
4231  def __init__(self, *args):
4232  r"""
4233  __init__(Vector4DDerivKey self) -> Vector4DDerivKey
4234  __init__(Vector4DDerivKey self, std::string const & c, bool is_implicit_add_permitted=True) -> Vector4DDerivKey
4235  __init__(Vector4DDerivKey self, unsigned int i) -> Vector4DDerivKey
4236  """
4237  _IMP_kernel.Vector4DDerivKey_swiginit(self, _IMP_kernel.new_Vector4DDerivKey(*args))
4238 
4239  @staticmethod
4240  def add_key(sc):
4241  r"""add_key(std::string sc) -> unsigned int"""
4242  return _IMP_kernel.Vector4DDerivKey_add_key(sc)
4243 
4244  @staticmethod
4245  def get_key_exists(sc):
4246  r"""get_key_exists(std::string sc) -> bool"""
4247  return _IMP_kernel.Vector4DDerivKey_get_key_exists(sc)
4248 
4249  def get_string(self):
4250  r"""get_string(Vector4DDerivKey self) -> std::string const"""
4251  return _IMP_kernel.Vector4DDerivKey_get_string(self)
4252 
4253  def __cmp__(self, o):
4254  r"""__cmp__(Vector4DDerivKey self, Vector4DDerivKey o) -> int"""
4255  return _IMP_kernel.Vector4DDerivKey___cmp__(self, o)
4256 
4257  def __eq__(self, o):
4258  r"""__eq__(Vector4DDerivKey self, Vector4DDerivKey o) -> bool"""
4259  return _IMP_kernel.Vector4DDerivKey___eq__(self, o)
4260 
4261  def __ne__(self, o):
4262  r"""__ne__(Vector4DDerivKey self, Vector4DDerivKey o) -> bool"""
4263  return _IMP_kernel.Vector4DDerivKey___ne__(self, o)
4264 
4265  def __lt__(self, o):
4266  r"""__lt__(Vector4DDerivKey self, Vector4DDerivKey o) -> bool"""
4267  return _IMP_kernel.Vector4DDerivKey___lt__(self, o)
4268 
4269  def __gt__(self, o):
4270  r"""__gt__(Vector4DDerivKey self, Vector4DDerivKey o) -> bool"""
4271  return _IMP_kernel.Vector4DDerivKey___gt__(self, o)
4272 
4273  def __ge__(self, o):
4274  r"""__ge__(Vector4DDerivKey self, Vector4DDerivKey o) -> bool"""
4275  return _IMP_kernel.Vector4DDerivKey___ge__(self, o)
4276 
4277  def __le__(self, o):
4278  r"""__le__(Vector4DDerivKey self, Vector4DDerivKey o) -> bool"""
4279  return _IMP_kernel.Vector4DDerivKey___le__(self, o)
4280 
4281  def __hash__(self):
4282  r"""__hash__(Vector4DDerivKey self) -> std::size_t"""
4283  return _IMP_kernel.Vector4DDerivKey___hash__(self)
4284 
4285  def show(self, *args):
4286  r"""show(Vector4DDerivKey self, _ostream out=std::cout)"""
4287  return _IMP_kernel.Vector4DDerivKey_show(self, *args)
4288 
4289  @staticmethod
4290  def add_alias(old_key, new_name):
4291  r"""add_alias(Vector4DDerivKey old_key, std::string new_name) -> Vector4DDerivKey"""
4292  return _IMP_kernel.Vector4DDerivKey_add_alias(old_key, new_name)
4293 
4294  @staticmethod
4295  def get_number_of_keys():
4296  r"""get_number_of_keys() -> unsigned int"""
4297  return _IMP_kernel.Vector4DDerivKey_get_number_of_keys()
4298 
4299  def get_index(self):
4300  r"""get_index(Vector4DDerivKey self) -> unsigned int"""
4301  return _IMP_kernel.Vector4DDerivKey_get_index(self)
4302 
4303  @staticmethod
4304  def show_all(out):
4305  r"""show_all(_ostream out)"""
4306  return _IMP_kernel.Vector4DDerivKey_show_all(out)
4307 
4308  @staticmethod
4309  def get_all_strings():
4310  r"""get_all_strings() -> IMP::Vector< std::string >"""
4311  return _IMP_kernel.Vector4DDerivKey_get_all_strings()
4312 
4313  @staticmethod
4314  def get_number_unique():
4315  r"""get_number_unique() -> unsigned int"""
4316  return _IMP_kernel.Vector4DDerivKey_get_number_unique()
4317 
4318  def __str__(self):
4319  r"""__str__(Vector4DDerivKey self) -> std::string"""
4320  return _IMP_kernel.Vector4DDerivKey___str__(self)
4321 
4322  def __repr__(self):
4323  r"""__repr__(Vector4DDerivKey self) -> std::string"""
4324  return _IMP_kernel.Vector4DDerivKey___repr__(self)
4325  __swig_destroy__ = _IMP_kernel.delete_Vector4DDerivKey
4326 
4327 # Register Vector4DDerivKey in _IMP_kernel:
4328 _IMP_kernel.Vector4DDerivKey_swigregister(Vector4DDerivKey)
4329 
4330 def ParticlePair(a, b):
4331  return (a,b)
4332 def ParticleTriplet(a, b, c):
4333  return (a,b,c)
4334 def ParticleQuad(a, b, c, d):
4335  return (a,b,c,d)
4336 
4337 class FloatIndex(_Value):
4338  r"""Proxy of C++ IMP::FloatIndex class."""
4339 
4340  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
4341 
4342  def __init__(self, *args):
4343  r"""
4344  __init__(FloatIndex self, ParticleIndex pi, FloatKey k) -> FloatIndex
4345  __init__(FloatIndex self, ParticleIndex pi, Vector3DDerivKey k, int index) -> FloatIndex
4346  __init__(FloatIndex self, ParticleIndex pi, Vector4DDerivKey k, int index) -> FloatIndex
4347  """
4348  _IMP_kernel.FloatIndex_swiginit(self, _IMP_kernel.new_FloatIndex(*args))
4349 
4350  def get_float_key(self):
4351  r"""get_float_key(FloatIndex self) -> FloatKey"""
4352  return _IMP_kernel.FloatIndex_get_float_key(self)
4353 
4354  def set_value(self, m, v):
4355  r"""set_value(FloatIndex self, Model m, IMP::Float v)"""
4356  return _IMP_kernel.FloatIndex_set_value(self, m, v)
4357 
4358  def get_value(self, m):
4359  r"""get_value(FloatIndex self, Model m) -> IMP::Float"""
4360  return _IMP_kernel.FloatIndex_get_value(self, m)
4361 
4362  def get_derivative(self, m):
4363  r"""get_derivative(FloatIndex self, Model m) -> IMP::Float"""
4364  return _IMP_kernel.FloatIndex_get_derivative(self, m)
4365 
4366  def show(self, *args):
4367  r"""show(FloatIndex self, _ostream out=std::cout)"""
4368  return _IMP_kernel.FloatIndex_show(self, *args)
4369 
4370  def __str__(self):
4371  r"""__str__(FloatIndex self) -> std::string"""
4372  return _IMP_kernel.FloatIndex___str__(self)
4373 
4374  def __repr__(self):
4375  r"""__repr__(FloatIndex self) -> std::string"""
4376  return _IMP_kernel.FloatIndex___repr__(self)
4377  __swig_destroy__ = _IMP_kernel.delete_FloatIndex
4378 
4379 # Register FloatIndex in _IMP_kernel:
4380 _IMP_kernel.FloatIndex_swigregister(FloatIndex)
4381 class _ParticleIndexTag(object):
4382  r"""Proxy of C++ IMP::ParticleIndexTag class."""
4383 
4384  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
4385  __repr__ = _swig_repr
4386 
4387  def __init__(self):
4388  r"""__init__(_ParticleIndexTag self) -> _ParticleIndexTag"""
4389  _IMP_kernel._ParticleIndexTag_swiginit(self, _IMP_kernel.new__ParticleIndexTag())
4390  __swig_destroy__ = _IMP_kernel.delete__ParticleIndexTag
4391 
4392 # Register _ParticleIndexTag in _IMP_kernel:
4393 _IMP_kernel._ParticleIndexTag_swigregister(_ParticleIndexTag)
4394 class ModelObject(Object):
4395  r"""Proxy of C++ IMP::ModelObject class."""
4396 
4397  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
4398 
4399  def __init__(self, *args):
4400  r"""
4401  __init__(ModelObject self, Model m, std::string name) -> ModelObject
4402  __init__(ModelObject self) -> ModelObject
4403  """
4404  if self.__class__ == ModelObject:
4405  _self = None
4406  else:
4407  _self = self
4408  _IMP_kernel.ModelObject_swiginit(self, _IMP_kernel.new_ModelObject(_self, *args))
4409 
4410  if self.__class__ != ModelObject:
4411  _director_objects.register(self)
4412 
4413 
4414 
4415  __swig_destroy__ = _IMP_kernel.delete_ModelObject
4416 
4417  def get_model(self):
4418  m = _IMP_kernel.ModelObject_get_model(self)
4419  if m in _models_set:
4420  m = _models_set_get(m)
4421  return m
4422 
4423 
4424 
4425  def get_inputs(self):
4426  r"""get_inputs(ModelObject self) -> IMP::ModelObjectsTemp"""
4427  return _IMP_kernel.ModelObject_get_inputs(self)
4428 
4429  def get_outputs(self):
4430  r"""get_outputs(ModelObject self) -> IMP::ModelObjectsTemp"""
4431  return _IMP_kernel.ModelObject_get_outputs(self)
4432 
4433  def get_interactions(self):
4434  r"""get_interactions(ModelObject self) -> IMP::ModelObjectsTemps"""
4435  return _IMP_kernel.ModelObject_get_interactions(self)
4436 
4437  def get_has_dependencies(self):
4438  r"""get_has_dependencies(ModelObject self) -> bool"""
4439  return _IMP_kernel.ModelObject_get_has_dependencies(self)
4440 
4441  def set_has_dependencies(self, tf):
4442  r"""set_has_dependencies(ModelObject self, bool tf)"""
4443  return _IMP_kernel.ModelObject_set_has_dependencies(self, tf)
4444 
4445  def set_has_required_score_states(self, tf):
4446  r"""set_has_required_score_states(ModelObject self, bool tf)"""
4447  return _IMP_kernel.ModelObject_set_has_required_score_states(self, tf)
4448 
4449  def get_has_required_score_states(self):
4450  r"""get_has_required_score_states(ModelObject self) -> bool"""
4451  return _IMP_kernel.ModelObject_get_has_required_score_states(self)
4452 
4453  def get_required_score_states(self):
4454  r"""get_required_score_states(ModelObject self) -> IMP::ScoreStatesTemp const &"""
4455  return _IMP_kernel.ModelObject_get_required_score_states(self)
4456 
4457  def handle_set_has_required_score_states(self, arg0):
4458  r"""handle_set_has_required_score_states(ModelObject self, bool arg0)"""
4459  return _IMP_kernel.ModelObject_handle_set_has_required_score_states(self, arg0)
4460 
4461  def do_get_inputs(self):
4462  r"""do_get_inputs(ModelObject self) -> IMP::ModelObjectsTemp"""
4463  return _IMP_kernel.ModelObject_do_get_inputs(self)
4464 
4465  def do_get_outputs(self):
4466  r"""do_get_outputs(ModelObject self) -> IMP::ModelObjectsTemp"""
4467  return _IMP_kernel.ModelObject_do_get_outputs(self)
4468 
4469  def do_get_interactions(self):
4470  r"""do_get_interactions(ModelObject self) -> IMP::ModelObjectsTemps"""
4471  return _IMP_kernel.ModelObject_do_get_interactions(self)
4472 
4473  def __str__(self):
4474  r"""__str__(ModelObject self) -> std::string"""
4475  return _IMP_kernel.ModelObject___str__(self)
4476 
4477  def __repr__(self):
4478  r"""__repr__(ModelObject self) -> std::string"""
4479  return _IMP_kernel.ModelObject___repr__(self)
4480 
4481  @staticmethod
4482  def get_from(o):
4483  return _object_cast_to_ModelObject(o)
4484 
4485 
4486  def do_show(self, out):
4487  pass
4488 
4489  @staticmethod
4490  def get_from(o):
4491  return _object_cast_to_ModelObject(o)
4492 
4493  def __disown__(self):
4494  self.this.disown()
4495  _IMP_kernel.disown_ModelObject(self)
4496  return weakref.proxy(self)
4497 
4498  def do_destroy(self):
4499  r"""do_destroy(ModelObject self)"""
4500  return _IMP_kernel.ModelObject_do_destroy(self)
4501 
4502 # Register ModelObject in _IMP_kernel:
4503 _IMP_kernel.ModelObject_swigregister(ModelObject)
4504 cvar = _IMP_kernel.cvar
4505 NO_MAX = cvar.NO_MAX
4506 BAD_SCORE = cvar.BAD_SCORE
4507 
4508 class _ParticleInputs(object):
4509  r"""Proxy of C++ IMP::ParticleInputs class."""
4510 
4511  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
4512 
4513  def __init__(self, *args, **kwargs):
4514  raise AttributeError("No constructor defined - class is abstract")
4515  __repr__ = _swig_repr
4516 
4517  def get_inputs(self, m, pis):
4518  r"""get_inputs(_ParticleInputs self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
4519  return _IMP_kernel._ParticleInputs_get_inputs(self, m, pis)
4520 
4521 # Register _ParticleInputs in _IMP_kernel:
4522 _IMP_kernel._ParticleInputs_swigregister(_ParticleInputs)
4523 class _ParticleOutputs(object):
4524  r"""Proxy of C++ IMP::ParticleOutputs class."""
4525 
4526  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
4527 
4528  def __init__(self, *args, **kwargs):
4529  raise AttributeError("No constructor defined - class is abstract")
4530  __repr__ = _swig_repr
4531 
4532  def get_outputs(self, m, pis):
4533  r"""get_outputs(_ParticleOutputs self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
4534  return _IMP_kernel._ParticleOutputs_get_outputs(self, m, pis)
4535 
4536 # Register _ParticleOutputs in _IMP_kernel:
4537 _IMP_kernel._ParticleOutputs_swigregister(_ParticleOutputs)
4538 
4539 def get_input_particles(mos):
4540  r"""get_input_particles(IMP::ModelObjectsTemp const & mos) -> IMP::ParticlesTemp"""
4541  return _IMP_kernel.get_input_particles(mos)
4542 
4543 def get_input_containers(mos):
4544  r"""get_input_containers(IMP::ModelObjectsTemp const & mos) -> IMP::ContainersTemp"""
4545  return _IMP_kernel.get_input_containers(mos)
4546 
4547 def get_output_particles(mos):
4548  r"""get_output_particles(IMP::ModelObjectsTemp const & mos) -> IMP::ParticlesTemp"""
4549  return _IMP_kernel.get_output_particles(mos)
4550 
4551 def get_output_containers(mos):
4552  r"""get_output_containers(IMP::ModelObjectsTemp const & mos) -> IMP::ContainersTemp"""
4553  return _IMP_kernel.get_output_containers(mos)
4554 
4555 Vector1Ds=list
4556 _plural_types.append("Vector1Ds")
4557 _value_types.append("Vector1D")
4558 
4559 
4560 Vector2Ds=list
4561 _plural_types.append("Vector2Ds")
4562 _value_types.append("Vector2D")
4563 
4564 
4565 Vector3Ds=list
4566 _plural_types.append("Vector3Ds")
4567 _value_types.append("Vector3D")
4568 
4569 
4570 Vector4Ds=list
4571 _plural_types.append("Vector4Ds")
4572 _value_types.append("Vector4D")
4573 
4574 
4575 Vector5Ds=list
4576 _plural_types.append("Vector5Ds")
4577 _value_types.append("Vector5D")
4578 
4579 
4580 Vector6Ds=list
4581 _plural_types.append("Vector6Ds")
4582 _value_types.append("Vector6D")
4583 
4584 
4585 Vector1Ds=list
4586 _plural_types.append("Vector1Ds")
4587 _value_types.append("VectorD<1>")
4588 
4589 
4590 Vector2Ds=list
4591 _plural_types.append("Vector2Ds")
4592 _value_types.append("VectorD<2>")
4593 
4594 
4595 Vector3Ds=list
4596 _plural_types.append("Vector3Ds")
4597 _value_types.append("VectorD<3>")
4598 
4599 
4600 Vector4Ds=list
4601 _plural_types.append("Vector4Ds")
4602 _value_types.append("VectorD<4>")
4603 
4604 
4605 Vector5Ds=list
4606 _plural_types.append("Vector5Ds")
4607 _value_types.append("VectorD<5>")
4608 
4609 
4610 Vector6Ds=list
4611 _plural_types.append("Vector6Ds")
4612 _value_types.append("VectorD<6>")
4613 
4614 
4615 VectorKDs=list
4616 _plural_types.append("VectorKDs")
4617 _value_types.append("VectorKD")
4618 
4619 
4620 VectorKDs=list
4621 _plural_types.append("VectorKDs")
4622 _value_types.append("VectorD<-1>")
4623 
4624 
4625 def get_basis_vector_kd(D, coordinate):
4626  r"""get_basis_vector_kd(int D, unsigned int coordinate) -> VectorKD"""
4627  return _IMP_kernel.get_basis_vector_kd(D, coordinate)
4628 
4629 def get_zero_vector_kd(D):
4630  r"""get_zero_vector_kd(int D) -> VectorKD"""
4631  return _IMP_kernel.get_zero_vector_kd(D)
4632 
4633 def get_ones_vector_kd(D, v=1):
4634  r"""get_ones_vector_kd(unsigned int D, double v=1) -> VectorKD"""
4635  return _IMP_kernel.get_ones_vector_kd(D, v)
4636 
4637 def get_vector_product(p1, p2):
4638  r"""get_vector_product(Vector3D p1, Vector3D p2) -> Vector3D"""
4639  return _IMP_kernel.get_vector_product(p1, p2)
4640 
4641 def get_orthogonal_vector(v):
4642  r"""get_orthogonal_vector(Vector3D v) -> Vector3D"""
4643  return _IMP_kernel.get_orthogonal_vector(v)
4644 
4645 def get_centroid(ps):
4646  r"""get_centroid(IMP::Vector3Ds const & ps) -> Vector3D"""
4647  return _IMP_kernel.get_centroid(ps)
4648 
4649 def get_radius_of_gyration(ps):
4650  r"""get_radius_of_gyration(IMP::Vector3Ds const & ps) -> double"""
4651  return _IMP_kernel.get_radius_of_gyration(ps)
4652 class DerivativeAccumulator(object):
4653  r"""Proxy of C++ IMP::DerivativeAccumulator class."""
4654 
4655  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
4656  __repr__ = _swig_repr
4657 
4658  def __init__(self, *args):
4659  r"""
4660  __init__(DerivativeAccumulator self, DerivativeAccumulator arg2) -> DerivativeAccumulator
4661  __init__(DerivativeAccumulator self, double weight=1.0) -> DerivativeAccumulator
4662  __init__(DerivativeAccumulator self, DerivativeAccumulator copy, double weight) -> DerivativeAccumulator
4663  """
4664  _IMP_kernel.DerivativeAccumulator_swiginit(self, _IMP_kernel.new_DerivativeAccumulator(*args))
4665 
4666  def __call__(self, *args):
4667  r"""
4668  __call__(DerivativeAccumulator self, double const value) -> double
4669  __call__(DerivativeAccumulator self, Vector3D value) -> Vector3D
4670  __call__(DerivativeAccumulator self, Vector4D value) -> Vector4D
4671  """
4672  return _IMP_kernel.DerivativeAccumulator___call__(self, *args)
4673 
4674  def get_weight(self):
4675  r"""get_weight(DerivativeAccumulator self) -> double"""
4676  return _IMP_kernel.DerivativeAccumulator_get_weight(self)
4677 
4678  def show(self, *args):
4679  r"""show(DerivativeAccumulator self, _ostream out=std::cout)"""
4680  return _IMP_kernel.DerivativeAccumulator_show(self, *args)
4681  __swig_destroy__ = _IMP_kernel.delete_DerivativeAccumulator
4682 
4683 # Register DerivativeAccumulator in _IMP_kernel:
4684 _IMP_kernel.DerivativeAccumulator_swigregister(DerivativeAccumulator)
4685 class EvaluationState(object):
4686  r"""Proxy of C++ IMP::EvaluationState class."""
4687 
4688  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
4689  score = property(_IMP_kernel.EvaluationState_score_get, _IMP_kernel.EvaluationState_score_set, doc=r"""score : double""")
4690  good = property(_IMP_kernel.EvaluationState_good_get, _IMP_kernel.EvaluationState_good_set, doc=r"""good : bool""")
4691 
4692  def __init__(self, *args):
4693  r"""
4694  __init__(EvaluationState self, double oscore, bool ogood) -> EvaluationState
4695  __init__(EvaluationState self) -> EvaluationState
4696  """
4697  _IMP_kernel.EvaluationState_swiginit(self, _IMP_kernel.new_EvaluationState(*args))
4698 
4699  def show(self, *args):
4700  r"""show(EvaluationState self, _ostream out=std::cout)"""
4701  return _IMP_kernel.EvaluationState_show(self, *args)
4702 
4703  def __str__(self):
4704  r"""__str__(EvaluationState self) -> std::string"""
4705  return _IMP_kernel.EvaluationState___str__(self)
4706 
4707  def __repr__(self):
4708  r"""__repr__(EvaluationState self) -> std::string"""
4709  return _IMP_kernel.EvaluationState___repr__(self)
4710  __swig_destroy__ = _IMP_kernel.delete_EvaluationState
4711 
4712 # Register EvaluationState in _IMP_kernel:
4713 _IMP_kernel.EvaluationState_swigregister(EvaluationState)
4714 class ScoreAccumulator(_Value):
4715  r"""Proxy of C++ IMP::ScoreAccumulator class."""
4716 
4717  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
4718 
4719  def __init__(self, *args):
4720  r"""
4721  __init__(ScoreAccumulator self, ScoreAccumulator arg2) -> ScoreAccumulator
4722  __init__(ScoreAccumulator self) -> ScoreAccumulator
4723  __init__(ScoreAccumulator self, ScoreAccumulator o, Restraint r) -> ScoreAccumulator
4724  __init__(ScoreAccumulator self, ScoreAccumulator o, double weight, double local_max) -> ScoreAccumulator
4725  """
4726  _IMP_kernel.ScoreAccumulator_swiginit(self, _IMP_kernel.new_ScoreAccumulator(*args))
4727 
4728  def add_score(self, score):
4729  r"""add_score(ScoreAccumulator self, double score)"""
4730  return _IMP_kernel.ScoreAccumulator_add_score(self, score)
4731 
4732  def get_abort_evaluation(self):
4733  r"""get_abort_evaluation(ScoreAccumulator self) -> bool"""
4734  return _IMP_kernel.ScoreAccumulator_get_abort_evaluation(self)
4735 
4736  def get_is_evaluate_if_below(self):
4737  r"""get_is_evaluate_if_below(ScoreAccumulator self) -> bool"""
4738  return _IMP_kernel.ScoreAccumulator_get_is_evaluate_if_below(self)
4739 
4740  def get_is_evaluate_if_good(self):
4741  r"""get_is_evaluate_if_good(ScoreAccumulator self) -> bool"""
4742  return _IMP_kernel.ScoreAccumulator_get_is_evaluate_if_good(self)
4743 
4744  def get_maximum(self):
4745  r"""get_maximum(ScoreAccumulator self) -> double"""
4746  return _IMP_kernel.ScoreAccumulator_get_maximum(self)
4747 
4748  def get_derivative_accumulator(self):
4749  r"""get_derivative_accumulator(ScoreAccumulator self) -> DerivativeAccumulator"""
4750  return _IMP_kernel.ScoreAccumulator_get_derivative_accumulator(self)
4751 
4752  def show(self, *args):
4753  r"""show(ScoreAccumulator self, _ostream out=std::cout)"""
4754  return _IMP_kernel.ScoreAccumulator_show(self, *args)
4755 
4756  def __str__(self):
4757  r"""__str__(ScoreAccumulator self) -> std::string"""
4758  return _IMP_kernel.ScoreAccumulator___str__(self)
4759 
4760  def __repr__(self):
4761  r"""__repr__(ScoreAccumulator self) -> std::string"""
4762  return _IMP_kernel.ScoreAccumulator___repr__(self)
4763  __swig_destroy__ = _IMP_kernel.delete_ScoreAccumulator
4764 
4765 # Register ScoreAccumulator in _IMP_kernel:
4766 _IMP_kernel.ScoreAccumulator_swigregister(ScoreAccumulator)
4767 class ScoreState(ModelObject):
4768  r"""Proxy of C++ IMP::ScoreState class."""
4769 
4770  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
4771 
4772  def set_can_skip(self, can_skip):
4773  r"""set_can_skip(ScoreState self, bool can_skip)"""
4774  return _IMP_kernel.ScoreState_set_can_skip(self, can_skip)
4775 
4776  def __init__(self, *args):
4777  r"""
4778  __init__(ScoreState self, Model m, std::string name) -> ScoreState
4779  __init__(ScoreState self) -> ScoreState
4780  """
4781  if self.__class__ == ScoreState:
4782  _self = None
4783  else:
4784  _self = self
4785  _IMP_kernel.ScoreState_swiginit(self, _IMP_kernel.new_ScoreState(_self, *args))
4786 
4787  if self.__class__ != ScoreState:
4788  _director_objects.register(self)
4789 
4790 
4791 
4792 
4793  def before_evaluate(self):
4794  r"""before_evaluate(ScoreState self)"""
4795  return _IMP_kernel.ScoreState_before_evaluate(self)
4796 
4797  def after_evaluate(self, accpt):
4798  r"""after_evaluate(ScoreState self, DerivativeAccumulator accpt)"""
4799  return _IMP_kernel.ScoreState_after_evaluate(self, accpt)
4800 
4801  def get_can_skip(self):
4802  r"""get_can_skip(ScoreState self) -> bool"""
4803  return _IMP_kernel.ScoreState_get_can_skip(self)
4804 
4805  def get_has_update_order(self):
4806  r"""get_has_update_order(ScoreState self) -> bool"""
4807  return _IMP_kernel.ScoreState_get_has_update_order(self)
4808 
4809  def get_update_order(self):
4810  r"""get_update_order(ScoreState self) -> unsigned int"""
4811  return _IMP_kernel.ScoreState_get_update_order(self)
4812 
4813  def handle_set_has_required_score_states(self, tf):
4814  r"""handle_set_has_required_score_states(ScoreState self, bool tf)"""
4815  return _IMP_kernel.ScoreState_handle_set_has_required_score_states(self, tf)
4816 
4817  def do_before_evaluate(self):
4818  r"""do_before_evaluate(ScoreState self)"""
4819  return _IMP_kernel.ScoreState_do_before_evaluate(self)
4820 
4821  def do_after_evaluate(self, accpt):
4822  r"""do_after_evaluate(ScoreState self, DerivativeAccumulator accpt)"""
4823  return _IMP_kernel.ScoreState_do_after_evaluate(self, accpt)
4824  __swig_destroy__ = _IMP_kernel.delete_ScoreState
4825 
4826  def __str__(self):
4827  r"""__str__(ScoreState self) -> std::string"""
4828  return _IMP_kernel.ScoreState___str__(self)
4829 
4830  def __repr__(self):
4831  r"""__repr__(ScoreState self) -> std::string"""
4832  return _IMP_kernel.ScoreState___repr__(self)
4833 
4834  @staticmethod
4835  def get_from(o):
4836  return _object_cast_to_ScoreState(o)
4837 
4838 
4839  def do_show(self, out):
4840  pass
4841 
4842  @staticmethod
4843  def get_from(o):
4844  return _object_cast_to_ScoreState(o)
4845 
4846 
4847  def _wrap_jax(self, apply_func, keys=None):
4848  """Create the return value for _get_jax.
4849  Use this method in _get_jax() to wrap the JAX apply function
4850  with other model- and ScoreState-specific information.
4851 
4852  @param apply_func A function implemented using JAX that takes
4853  a single argument (the current JAX Model) and returns
4854  a new JAX Model with the ScoreState's transformation
4855  applied.
4856  @param keys If given, a set of IMP::Key objects describing Model
4857  attributes (other than xyz and radius) that the ScoreState
4858  uses.
4859  """
4860  from IMP._jax_util import JAXScoreStateInfo
4861  return JAXScoreStateInfo(m=self.get_model(), apply_func=apply_func,
4862  keys=keys)
4863 
4864  def _get_jax(self):
4865  """Return a JAX implementation of this ScoreState.
4866  Implement this method in a ScoreState subclass to provide
4867  an equivalent function using [JAX](https://docs.jax.dev/)
4868  that modifies the JAX Model. See also _wrap_jax.
4869  """
4870  raise NotImplementedError(
4871  f"No JAX implementation for {self} ({type(self)})")
4872 
4873  def __disown__(self):
4874  self.this.disown()
4875  _IMP_kernel.disown_ScoreState(self)
4876  return weakref.proxy(self)
4877 
4878  def do_destroy(self):
4879  r"""do_destroy(ScoreState self)"""
4880  return _IMP_kernel.ScoreState_do_destroy(self)
4881 
4882  def do_get_inputs(self):
4883  r"""do_get_inputs(ScoreState self) -> IMP::ModelObjectsTemp"""
4884  return _IMP_kernel.ScoreState_do_get_inputs(self)
4885 
4886  def do_get_outputs(self):
4887  r"""do_get_outputs(ScoreState self) -> IMP::ModelObjectsTemp"""
4888  return _IMP_kernel.ScoreState_do_get_outputs(self)
4889 
4890  def do_get_interactions(self):
4891  r"""do_get_interactions(ScoreState self) -> IMP::ModelObjectsTemps"""
4892  return _IMP_kernel.ScoreState_do_get_interactions(self)
4893 
4894 # Register ScoreState in _IMP_kernel:
4895 _IMP_kernel.ScoreState_swigregister(ScoreState)
4896 
4897 def get_update_order(input):
4898  r"""get_update_order(IMP::ScoreStatesTemp input) -> IMP::ScoreStatesTemp"""
4899  return _IMP_kernel.get_update_order(input)
4900 class Constraint(ScoreState):
4901  r"""Proxy of C++ IMP::Constraint class."""
4902 
4903  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
4904 
4905  def __init__(self, *args):
4906  r"""
4907  __init__(Constraint self, Model m, std::string name="Constraint %1%") -> Constraint
4908  __init__(Constraint self) -> Constraint
4909  """
4910  if self.__class__ == Constraint:
4911  _self = None
4912  else:
4913  _self = self
4914  _IMP_kernel.Constraint_swiginit(self, _IMP_kernel.new_Constraint(_self, *args))
4915 
4916  if self.__class__ != Constraint:
4917  _director_objects.register(self)
4918 
4919 
4920 
4921 
4922  def do_update_attributes(self):
4923  r"""do_update_attributes(Constraint self)"""
4924  return _IMP_kernel.Constraint_do_update_attributes(self)
4925 
4926  def do_update_derivatives(self, da):
4927  r"""do_update_derivatives(Constraint self, DerivativeAccumulator da)"""
4928  return _IMP_kernel.Constraint_do_update_derivatives(self, da)
4929 
4930  def do_before_evaluate(self):
4931  r"""do_before_evaluate(Constraint self)"""
4932  return _IMP_kernel.Constraint_do_before_evaluate(self)
4933 
4934  def do_after_evaluate(self, da):
4935  r"""do_after_evaluate(Constraint self, DerivativeAccumulator da)"""
4936  return _IMP_kernel.Constraint_do_after_evaluate(self, da)
4937  __swig_destroy__ = _IMP_kernel.delete_Constraint
4938 
4939  def __str__(self):
4940  r"""__str__(Constraint self) -> std::string"""
4941  return _IMP_kernel.Constraint___str__(self)
4942 
4943  def __repr__(self):
4944  r"""__repr__(Constraint self) -> std::string"""
4945  return _IMP_kernel.Constraint___repr__(self)
4946 
4947  @staticmethod
4948  def get_from(o):
4949  return _object_cast_to_Constraint(o)
4950 
4951 
4952  def do_show(self, out):
4953  pass
4954 
4955  @staticmethod
4956  def get_from(o):
4957  return _object_cast_to_Constraint(o)
4958 
4959  def __disown__(self):
4960  self.this.disown()
4961  _IMP_kernel.disown_Constraint(self)
4962  return weakref.proxy(self)
4963 
4964  def do_destroy(self):
4965  r"""do_destroy(Constraint self)"""
4966  return _IMP_kernel.Constraint_do_destroy(self)
4967 
4968  def do_get_inputs(self):
4969  r"""do_get_inputs(Constraint self) -> IMP::ModelObjectsTemp"""
4970  return _IMP_kernel.Constraint_do_get_inputs(self)
4971 
4972  def do_get_outputs(self):
4973  r"""do_get_outputs(Constraint self) -> IMP::ModelObjectsTemp"""
4974  return _IMP_kernel.Constraint_do_get_outputs(self)
4975 
4976  def do_get_interactions(self):
4977  r"""do_get_interactions(Constraint self) -> IMP::ModelObjectsTemps"""
4978  return _IMP_kernel.Constraint_do_get_interactions(self)
4979 
4980 # Register Constraint in _IMP_kernel:
4981 _IMP_kernel.Constraint_swigregister(Constraint)
4982 class Container(ModelObject):
4983  r"""Proxy of C++ IMP::Container class."""
4984 
4985  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
4986 
4987  def __init__(self, *args):
4988  r"""
4989  __init__(Container self, Model m, std::string name="Container %1%") -> Container
4990  __init__(Container self) -> Container
4991  """
4992  if self.__class__ == Container:
4993  _self = None
4994  else:
4995  _self = self
4996  _IMP_kernel.Container_swiginit(self, _IMP_kernel.new_Container(_self, *args))
4997 
4998  if self.__class__ != Container:
4999  _director_objects.register(self)
5000 
5001 
5002 
5003 
5004  def do_get_contents_hash(self):
5005  r"""do_get_contents_hash(Container self) -> std::size_t"""
5006  return _IMP_kernel.Container_do_get_contents_hash(self)
5007 
5008  def get_all_possible_indexes(self):
5009  r"""get_all_possible_indexes(Container self) -> IMP::ParticleIndexes"""
5010  return _IMP_kernel.Container_get_all_possible_indexes(self)
5011 
5012  def get_contents_hash(self):
5013  r"""get_contents_hash(Container self) -> std::size_t"""
5014  return _IMP_kernel.Container_get_contents_hash(self)
5015 
5016  def do_get_outputs(self):
5017  r"""do_get_outputs(Container self) -> IMP::ModelObjectsTemp"""
5018  return _IMP_kernel.Container_do_get_outputs(self)
5019 
5020  def get_is_decomposable(self):
5021  r"""get_is_decomposable(Container self) -> bool"""
5022  return _IMP_kernel.Container_get_is_decomposable(self)
5023 
5024  def validate_readable(self):
5025  r"""validate_readable(Container self)"""
5026  return _IMP_kernel.Container_validate_readable(self)
5027 
5028  def validate_writable(self):
5029  r"""validate_writable(Container self)"""
5030  return _IMP_kernel.Container_validate_writable(self)
5031 
5032  def set_is_readable(self, tf):
5033  r"""set_is_readable(Container self, bool tf)"""
5034  return _IMP_kernel.Container_set_is_readable(self, tf)
5035 
5036  def set_is_writable(self, tf):
5037  r"""set_is_writable(Container self, bool tf)"""
5038  return _IMP_kernel.Container_set_is_writable(self, tf)
5039  __swig_destroy__ = _IMP_kernel.delete_Container
5040 
5041  def __str__(self):
5042  r"""__str__(Container self) -> std::string"""
5043  return _IMP_kernel.Container___str__(self)
5044 
5045  def __repr__(self):
5046  r"""__repr__(Container self) -> std::string"""
5047  return _IMP_kernel.Container___repr__(self)
5048 
5049  @staticmethod
5050  def get_from(o):
5051  return _object_cast_to_Container(o)
5052 
5053 
5054  def do_show(self, out):
5055  pass
5056 
5057  @staticmethod
5058  def get_from(o):
5059  return _object_cast_to_Container(o)
5060 
5061  def __disown__(self):
5062  self.this.disown()
5063  _IMP_kernel.disown_Container(self)
5064  return weakref.proxy(self)
5065 
5066  def do_destroy(self):
5067  r"""do_destroy(Container self)"""
5068  return _IMP_kernel.Container_do_destroy(self)
5069 
5070  def handle_set_has_required_score_states(self, arg0):
5071  r"""handle_set_has_required_score_states(Container self, bool arg0)"""
5072  return _IMP_kernel.Container_handle_set_has_required_score_states(self, arg0)
5073 
5074  def do_get_inputs(self):
5075  r"""do_get_inputs(Container self) -> IMP::ModelObjectsTemp"""
5076  return _IMP_kernel.Container_do_get_inputs(self)
5077 
5078  def do_get_interactions(self):
5079  r"""do_get_interactions(Container self) -> IMP::ModelObjectsTemps"""
5080  return _IMP_kernel.Container_do_get_interactions(self)
5081 
5082 # Register Container in _IMP_kernel:
5083 _IMP_kernel.Container_swigregister(Container)
5084 class RestraintInfo(Object):
5085  r"""Proxy of C++ IMP::RestraintInfo class."""
5086 
5087  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
5088 
5089  def __init__(self, *args):
5090  r"""__init__(RestraintInfo self, std::string name="RestraintInfo %1%") -> RestraintInfo"""
5091  _IMP_kernel.RestraintInfo_swiginit(self, _IMP_kernel.new_RestraintInfo(*args))
5092 
5093  def clear(self):
5094  r"""clear(RestraintInfo self)"""
5095  return _IMP_kernel.RestraintInfo_clear(self)
5096 
5097  def add_int(self, key, value):
5098  r"""add_int(RestraintInfo self, std::string key, int value)"""
5099  return _IMP_kernel.RestraintInfo_add_int(self, key, value)
5100 
5101  def get_number_of_int(self):
5102  r"""get_number_of_int(RestraintInfo self) -> unsigned int"""
5103  return _IMP_kernel.RestraintInfo_get_number_of_int(self)
5104 
5105  def get_int_key(self, i):
5106  r"""get_int_key(RestraintInfo self, unsigned int i) -> std::string"""
5107  return _IMP_kernel.RestraintInfo_get_int_key(self, i)
5108 
5109  def get_int_value(self, i):
5110  r"""get_int_value(RestraintInfo self, unsigned int i) -> int"""
5111  return _IMP_kernel.RestraintInfo_get_int_value(self, i)
5112 
5113  def add_float(self, key, value):
5114  r"""add_float(RestraintInfo self, std::string key, double value)"""
5115  return _IMP_kernel.RestraintInfo_add_float(self, key, value)
5116 
5117  def get_number_of_float(self):
5118  r"""get_number_of_float(RestraintInfo self) -> unsigned int"""
5119  return _IMP_kernel.RestraintInfo_get_number_of_float(self)
5120 
5121  def get_float_key(self, i):
5122  r"""get_float_key(RestraintInfo self, unsigned int i) -> std::string"""
5123  return _IMP_kernel.RestraintInfo_get_float_key(self, i)
5124 
5125  def get_float_value(self, i):
5126  r"""get_float_value(RestraintInfo self, unsigned int i) -> double"""
5127  return _IMP_kernel.RestraintInfo_get_float_value(self, i)
5128 
5129  def add_string(self, key, value):
5130  r"""add_string(RestraintInfo self, std::string key, std::string value)"""
5131  return _IMP_kernel.RestraintInfo_add_string(self, key, value)
5132 
5133  def get_number_of_string(self):
5134  r"""get_number_of_string(RestraintInfo self) -> unsigned int"""
5135  return _IMP_kernel.RestraintInfo_get_number_of_string(self)
5136 
5137  def get_string_key(self, i):
5138  r"""get_string_key(RestraintInfo self, unsigned int i) -> std::string"""
5139  return _IMP_kernel.RestraintInfo_get_string_key(self, i)
5140 
5141  def get_string_value(self, i):
5142  r"""get_string_value(RestraintInfo self, unsigned int i) -> std::string"""
5143  return _IMP_kernel.RestraintInfo_get_string_value(self, i)
5144 
5145  def add_filename(self, key, value):
5146  r"""add_filename(RestraintInfo self, std::string key, std::string value)"""
5147  return _IMP_kernel.RestraintInfo_add_filename(self, key, value)
5148 
5149  def get_number_of_filename(self):
5150  r"""get_number_of_filename(RestraintInfo self) -> unsigned int"""
5151  return _IMP_kernel.RestraintInfo_get_number_of_filename(self)
5152 
5153  def get_filename_key(self, i):
5154  r"""get_filename_key(RestraintInfo self, unsigned int i) -> std::string"""
5155  return _IMP_kernel.RestraintInfo_get_filename_key(self, i)
5156 
5157  def get_filename_value(self, i):
5158  r"""get_filename_value(RestraintInfo self, unsigned int i) -> std::string"""
5159  return _IMP_kernel.RestraintInfo_get_filename_value(self, i)
5160 
5161  def add_floats(self, key, value):
5162  r"""add_floats(RestraintInfo self, std::string key, IMP::Floats value)"""
5163  return _IMP_kernel.RestraintInfo_add_floats(self, key, value)
5164 
5165  def get_number_of_floats(self):
5166  r"""get_number_of_floats(RestraintInfo self) -> unsigned int"""
5167  return _IMP_kernel.RestraintInfo_get_number_of_floats(self)
5168 
5169  def get_floats_key(self, i):
5170  r"""get_floats_key(RestraintInfo self, unsigned int i) -> std::string"""
5171  return _IMP_kernel.RestraintInfo_get_floats_key(self, i)
5172 
5173  def get_floats_value(self, i):
5174  r"""get_floats_value(RestraintInfo self, unsigned int i) -> IMP::Floats"""
5175  return _IMP_kernel.RestraintInfo_get_floats_value(self, i)
5176 
5177  def add_ints(self, key, value):
5178  r"""add_ints(RestraintInfo self, std::string key, IMP::Ints value)"""
5179  return _IMP_kernel.RestraintInfo_add_ints(self, key, value)
5180 
5181  def get_number_of_ints(self):
5182  r"""get_number_of_ints(RestraintInfo self) -> unsigned int"""
5183  return _IMP_kernel.RestraintInfo_get_number_of_ints(self)
5184 
5185  def get_ints_key(self, i):
5186  r"""get_ints_key(RestraintInfo self, unsigned int i) -> std::string"""
5187  return _IMP_kernel.RestraintInfo_get_ints_key(self, i)
5188 
5189  def get_ints_value(self, i):
5190  r"""get_ints_value(RestraintInfo self, unsigned int i) -> IMP::Ints"""
5191  return _IMP_kernel.RestraintInfo_get_ints_value(self, i)
5192 
5193  def add_strings(self, key, value):
5194  r"""add_strings(RestraintInfo self, std::string key, IMP::Strings value)"""
5195  return _IMP_kernel.RestraintInfo_add_strings(self, key, value)
5196 
5197  def get_number_of_strings(self):
5198  r"""get_number_of_strings(RestraintInfo self) -> unsigned int"""
5199  return _IMP_kernel.RestraintInfo_get_number_of_strings(self)
5200 
5201  def get_strings_key(self, i):
5202  r"""get_strings_key(RestraintInfo self, unsigned int i) -> std::string"""
5203  return _IMP_kernel.RestraintInfo_get_strings_key(self, i)
5204 
5205  def get_strings_value(self, i):
5206  r"""get_strings_value(RestraintInfo self, unsigned int i) -> IMP::Strings"""
5207  return _IMP_kernel.RestraintInfo_get_strings_value(self, i)
5208 
5209  def add_filenames(self, key, value):
5210  r"""add_filenames(RestraintInfo self, std::string key, IMP::Strings value)"""
5211  return _IMP_kernel.RestraintInfo_add_filenames(self, key, value)
5212 
5213  def get_number_of_filenames(self):
5214  r"""get_number_of_filenames(RestraintInfo self) -> unsigned int"""
5215  return _IMP_kernel.RestraintInfo_get_number_of_filenames(self)
5216 
5217  def get_filenames_key(self, i):
5218  r"""get_filenames_key(RestraintInfo self, unsigned int i) -> std::string"""
5219  return _IMP_kernel.RestraintInfo_get_filenames_key(self, i)
5220 
5221  def get_filenames_value(self, i):
5222  r"""get_filenames_value(RestraintInfo self, unsigned int i) -> IMP::Strings"""
5223  return _IMP_kernel.RestraintInfo_get_filenames_value(self, i)
5224 
5225  def add_particle_indexes(self, key, value):
5226  r"""add_particle_indexes(RestraintInfo self, std::string key, IMP::ParticleIndexes value)"""
5227  return _IMP_kernel.RestraintInfo_add_particle_indexes(self, key, value)
5228 
5229  def get_number_of_particle_indexes(self):
5230  r"""get_number_of_particle_indexes(RestraintInfo self) -> unsigned int"""
5231  return _IMP_kernel.RestraintInfo_get_number_of_particle_indexes(self)
5232 
5233  def get_particle_indexes_key(self, i):
5234  r"""get_particle_indexes_key(RestraintInfo self, unsigned int i) -> std::string"""
5235  return _IMP_kernel.RestraintInfo_get_particle_indexes_key(self, i)
5236 
5237  def get_particle_indexes_value(self, i):
5238  r"""get_particle_indexes_value(RestraintInfo self, unsigned int i) -> IMP::ParticleIndexes"""
5239  return _IMP_kernel.RestraintInfo_get_particle_indexes_value(self, i)
5240 
5241  def get_version_info(self):
5242  r"""get_version_info(RestraintInfo self) -> VersionInfo"""
5243  return _IMP_kernel.RestraintInfo_get_version_info(self)
5244  __swig_destroy__ = _IMP_kernel.delete_RestraintInfo
5245 
5246  def __str__(self):
5247  r"""__str__(RestraintInfo self) -> std::string"""
5248  return _IMP_kernel.RestraintInfo___str__(self)
5249 
5250  def __repr__(self):
5251  r"""__repr__(RestraintInfo self) -> std::string"""
5252  return _IMP_kernel.RestraintInfo___repr__(self)
5253 
5254  @staticmethod
5255  def get_from(o):
5256  return _object_cast_to_RestraintInfo(o)
5257 
5258 
5259 # Register RestraintInfo in _IMP_kernel:
5260 _IMP_kernel.RestraintInfo_swigregister(RestraintInfo)
5261 class Restraint(ModelObject):
5262  r"""Proxy of C++ IMP::Restraint class."""
5263 
5264  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
5265 
5266  def __init__(self, *args):
5267  r"""
5268  __init__(Restraint self, Model m, std::string name) -> Restraint
5269  __init__(Restraint self) -> Restraint
5270  """
5271  if self.__class__ == Restraint:
5272  _self = None
5273  else:
5274  _self = self
5275  _IMP_kernel.Restraint_swiginit(self, _IMP_kernel.new_Restraint(_self, *args))
5276 
5277  if self.__class__ != Restraint:
5278  _director_objects.register(self)
5279 
5280 
5281 
5282 
5283  def get_score(self):
5284  r"""get_score(Restraint self) -> double"""
5285  return _IMP_kernel.Restraint_get_score(self)
5286 
5287  def evaluate(self, calc_derivs):
5288  r"""evaluate(Restraint self, bool calc_derivs) -> double"""
5289  return _IMP_kernel.Restraint_evaluate(self, calc_derivs)
5290 
5291  def evaluate_moved(self, calc_derivs, moved_pis, reset_pis):
5292  r"""evaluate_moved(Restraint self, bool calc_derivs, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis) -> double"""
5293  return _IMP_kernel.Restraint_evaluate_moved(self, calc_derivs, moved_pis, reset_pis)
5294 
5295  def evaluate_moved_if_below(self, calc_derivatives, moved_pis, reset_pis, max):
5296  r"""evaluate_moved_if_below(Restraint self, bool calc_derivatives, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis, double max) -> double"""
5297  return _IMP_kernel.Restraint_evaluate_moved_if_below(self, calc_derivatives, moved_pis, reset_pis, max)
5298 
5299  def evaluate_moved_if_good(self, calc_derivatives, moved_pis, reset_pis):
5300  r"""evaluate_moved_if_good(Restraint self, bool calc_derivatives, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis) -> double"""
5301  return _IMP_kernel.Restraint_evaluate_moved_if_good(self, calc_derivatives, moved_pis, reset_pis)
5302 
5303  def evaluate_if_good(self, calc_derivatives):
5304  r"""evaluate_if_good(Restraint self, bool calc_derivatives) -> double"""
5305  return _IMP_kernel.Restraint_evaluate_if_good(self, calc_derivatives)
5306 
5307  def evaluate_if_below(self, calc_derivatives, max):
5308  r"""evaluate_if_below(Restraint self, bool calc_derivatives, double max) -> double"""
5309  return _IMP_kernel.Restraint_evaluate_if_below(self, calc_derivatives, max)
5310 
5311  def unprotected_evaluate(self, da):
5312  r"""unprotected_evaluate(Restraint self, DerivativeAccumulator da) -> double"""
5313  return _IMP_kernel.Restraint_unprotected_evaluate(self, da)
5314 
5315  def unprotected_evaluate_moved(self, da, moved_pis, reset_pis):
5316  r"""unprotected_evaluate_moved(Restraint self, DerivativeAccumulator da, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis) -> double"""
5317  return _IMP_kernel.Restraint_unprotected_evaluate_moved(self, da, moved_pis, reset_pis)
5318 
5319  def unprotected_evaluate_if_good(self, da, max):
5320  r"""unprotected_evaluate_if_good(Restraint self, DerivativeAccumulator da, double max) -> double"""
5321  return _IMP_kernel.Restraint_unprotected_evaluate_if_good(self, da, max)
5322 
5323  def unprotected_evaluate_if_below(self, da, max):
5324  r"""unprotected_evaluate_if_below(Restraint self, DerivativeAccumulator da, double max) -> double"""
5325  return _IMP_kernel.Restraint_unprotected_evaluate_if_below(self, da, max)
5326 
5327  def unprotected_evaluate_moved_if_below(self, da, moved_pis, reset_pis, max):
5328  r"""unprotected_evaluate_moved_if_below(Restraint self, DerivativeAccumulator da, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis, double max) -> double"""
5329  return _IMP_kernel.Restraint_unprotected_evaluate_moved_if_below(self, da, moved_pis, reset_pis, max)
5330 
5331  def unprotected_evaluate_moved_if_good(self, da, moved_pis, reset_pis, max):
5332  r"""unprotected_evaluate_moved_if_good(Restraint self, DerivativeAccumulator da, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis, double max) -> double"""
5333  return _IMP_kernel.Restraint_unprotected_evaluate_moved_if_good(self, da, moved_pis, reset_pis, max)
5334 
5335  def get_static_info(self):
5336  r"""get_static_info(Restraint self) -> RestraintInfo"""
5337  return _IMP_kernel.Restraint_get_static_info(self)
5338 
5339  def get_dynamic_info(self):
5340  r"""get_dynamic_info(Restraint self) -> RestraintInfo"""
5341  return _IMP_kernel.Restraint_get_dynamic_info(self)
5342 
5343  def add_score_and_derivatives(self, sa):
5344  r"""add_score_and_derivatives(Restraint self, ScoreAccumulator sa)"""
5345  return _IMP_kernel.Restraint_add_score_and_derivatives(self, sa)
5346 
5347  def add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis):
5348  r"""add_score_and_derivatives_moved(Restraint self, ScoreAccumulator sa, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
5349  return _IMP_kernel.Restraint_add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis)
5350 
5351  def create_decomposition(self):
5352  r"""create_decomposition(Restraint self) -> Restraint"""
5353  return _IMP_kernel.Restraint_create_decomposition(self)
5354 
5355  def create_current_decomposition(self):
5356  r"""create_current_decomposition(Restraint self) -> Restraint"""
5357  return _IMP_kernel.Restraint_create_current_decomposition(self)
5358 
5359  def set_weight(self, weight):
5360  r"""set_weight(Restraint self, IMP::Float weight)"""
5361  return _IMP_kernel.Restraint_set_weight(self, weight)
5362 
5363  def get_weight(self):
5364  r"""get_weight(Restraint self) -> IMP::Float"""
5365  return _IMP_kernel.Restraint_get_weight(self)
5366 
5367  def get_maximum_score(self):
5368  r"""get_maximum_score(Restraint self) -> double"""
5369  return _IMP_kernel.Restraint_get_maximum_score(self)
5370 
5371  def set_maximum_score(self, s):
5372  r"""set_maximum_score(Restraint self, double s)"""
5373  return _IMP_kernel.Restraint_set_maximum_score(self, s)
5374 
5375  def create_scoring_function(self, *args):
5376  r"""create_scoring_function(Restraint self, double weight=1.0, double max=NO_MAX) -> ScoringFunction"""
5377  return _IMP_kernel.Restraint_create_scoring_function(self, *args)
5378 
5379  def set_last_score(self, s):
5380  r"""set_last_score(Restraint self, double s)"""
5381  return _IMP_kernel.Restraint_set_last_score(self, s)
5382 
5383  def set_last_last_score(self, s):
5384  r"""set_last_last_score(Restraint self, double s)"""
5385  return _IMP_kernel.Restraint_set_last_last_score(self, s)
5386 
5387  def get_last_score(self):
5388  r"""get_last_score(Restraint self) -> double"""
5389  return _IMP_kernel.Restraint_get_last_score(self)
5390 
5391  def get_last_last_score(self):
5392  r"""get_last_last_score(Restraint self) -> double"""
5393  return _IMP_kernel.Restraint_get_last_last_score(self)
5394 
5395  def get_is_aggregate(self):
5396  r"""get_is_aggregate(Restraint self) -> bool"""
5397  return _IMP_kernel.Restraint_get_is_aggregate(self)
5398 
5399  def get_was_good(self):
5400  r"""get_was_good(Restraint self) -> bool"""
5401  return _IMP_kernel.Restraint_get_was_good(self)
5402  __swig_destroy__ = _IMP_kernel.delete_Restraint
5403 
5404  def do_create_decomposition(self):
5405  r"""do_create_decomposition(Restraint self) -> IMP::Restraints"""
5406  return _IMP_kernel.Restraint_do_create_decomposition(self)
5407 
5408  def do_create_current_decomposition(self):
5409  r"""do_create_current_decomposition(Restraint self) -> IMP::Restraints"""
5410  return _IMP_kernel.Restraint_do_create_current_decomposition(self)
5411 
5412  def do_add_score_and_derivatives(self, sa):
5413  r"""do_add_score_and_derivatives(Restraint self, ScoreAccumulator sa)"""
5414  return _IMP_kernel.Restraint_do_add_score_and_derivatives(self, sa)
5415 
5416  def do_add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis):
5417  r"""do_add_score_and_derivatives_moved(Restraint self, ScoreAccumulator sa, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
5418  return _IMP_kernel.Restraint_do_add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis)
5419 
5420  def do_get_outputs(self):
5421  r"""do_get_outputs(Restraint self) -> IMP::ModelObjectsTemp"""
5422  return _IMP_kernel.Restraint_do_get_outputs(self)
5423  is_aggregate_ = property(_IMP_kernel.Restraint_is_aggregate__get, _IMP_kernel.Restraint_is_aggregate__set, doc=r"""is_aggregate_ : bool""")
5424 
5425  def __str__(self):
5426  r"""__str__(Restraint self) -> std::string"""
5427  return _IMP_kernel.Restraint___str__(self)
5428 
5429  def __repr__(self):
5430  r"""__repr__(Restraint self) -> std::string"""
5431  return _IMP_kernel.Restraint___repr__(self)
5432 
5433  @staticmethod
5434  def get_from(o):
5435  return _object_cast_to_Restraint(o)
5436 
5437 
5438  def do_show(self, out):
5439  pass
5440 
5441  @staticmethod
5442  def get_from(o):
5443  return _object_cast_to_Restraint(o)
5444 
5445 
5446  def _wrap_jax(self, score_func, keys=None):
5447  """Create the return value for _get_jax.
5448  Use this method in _get_jax() to wrap the JAX scoring function
5449  with other model- and restraint-specific information.
5450 
5451  @param score_func A function implemented using JAX that takes
5452  a single argument (the current JAX Model) and returns
5453  the score of the restraint.
5454  @param keys If given, a set of IMP::Key objects describing Model
5455  attributes (other than xyz and radius) that the restraint
5456  uses. For example, a restraint that uses electrostatic charge
5457  would pass IMP::atom::Charged::get_charge_key() here.
5458  """
5459  from IMP._jax_util import JAXRestraintInfo
5460  return JAXRestraintInfo(m=self.get_model(), score_func=score_func,
5461  weight=self.get_weight(), keys=keys)
5462 
5463  def _get_jax(self):
5464  """Return a JAX implementation of this Restraint.
5465  Implement this method in a Restraint subclass to provide
5466  an equivalent function using [JAX](https://docs.jax.dev/)
5467  that scores the current JAX Model. See also _wrap_jax.
5468  """
5469  raise NotImplementedError(
5470  f"No JAX implementation for {self} ({type(self)})")
5471 
5472  def _evaluate_jax(self):
5473  """Similar to evaluate(False), but using JAX.
5474  This is intended to be useful for testing purposes. It will likely
5475  not be particularly fast as it will copy the IMP Model and
5476  jax.jit-compile the scoring function each time."""
5477  import jax
5478  ji = self._get_jax()
5479  jm = ji.get_jax_model()
5480  j = jax.jit(ji.score_func)
5481  return j(jm)
5482 
5483  def __disown__(self):
5484  self.this.disown()
5485  _IMP_kernel.disown_Restraint(self)
5486  return weakref.proxy(self)
5487 
5488  def do_destroy(self):
5489  r"""do_destroy(Restraint self)"""
5490  return _IMP_kernel.Restraint_do_destroy(self)
5491 
5492  def handle_set_has_required_score_states(self, arg0):
5493  r"""handle_set_has_required_score_states(Restraint self, bool arg0)"""
5494  return _IMP_kernel.Restraint_handle_set_has_required_score_states(self, arg0)
5495 
5496  def do_get_inputs(self):
5497  r"""do_get_inputs(Restraint self) -> IMP::ModelObjectsTemp"""
5498  return _IMP_kernel.Restraint_do_get_inputs(self)
5499 
5500  def do_get_interactions(self):
5501  r"""do_get_interactions(Restraint self) -> IMP::ModelObjectsTemps"""
5502  return _IMP_kernel.Restraint_do_get_interactions(self)
5503 
5504 # Register Restraint in _IMP_kernel:
5505 _IMP_kernel.Restraint_swigregister(Restraint)
5506 class _RestraintsAdaptor(_InputAdaptor):
5507  r"""Proxy of C++ IMP::RestraintsAdaptor class."""
5508 
5509  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
5510  __repr__ = _swig_repr
5511 
5512  def __init__(self, *args):
5513  r"""
5514  __init__(_RestraintsAdaptor self) -> _RestraintsAdaptor
5515  __init__(_RestraintsAdaptor self, IMP::Restraints const & sf) -> _RestraintsAdaptor
5516  __init__(_RestraintsAdaptor self, IMP::RestraintsTemp const & sf) -> _RestraintsAdaptor
5517  __init__(_RestraintsAdaptor self, Restraint sf) -> _RestraintsAdaptor
5518  """
5519  _IMP_kernel._RestraintsAdaptor_swiginit(self, _IMP_kernel.new__RestraintsAdaptor(*args))
5520  __swig_destroy__ = _IMP_kernel.delete__RestraintsAdaptor
5521 
5522 # Register _RestraintsAdaptor in _IMP_kernel:
5523 _IMP_kernel._RestraintsAdaptor_swigregister(_RestraintsAdaptor)
5524 class RestraintSet(Restraint):
5525  r"""Proxy of C++ IMP::RestraintSet class."""
5526 
5527  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
5528 
5529  def __init__(self, *args):
5530  r"""
5531  __init__(RestraintSet self, Model m, double weight, std::string const & name="RestraintSet %1%") -> RestraintSet
5532  __init__(RestraintSet self, Model m, std::string const & name="RestraintSet %1%") -> RestraintSet
5533  __init__(RestraintSet self, IMP::RestraintsTemp const & rs, double weight, std::string const & name="RestraintSet %1%") -> RestraintSet
5534  __init__(RestraintSet self) -> RestraintSet
5535  """
5536  if self.__class__ == RestraintSet:
5537  _self = None
5538  else:
5539  _self = self
5540  _IMP_kernel.RestraintSet_swiginit(self, _IMP_kernel.new_RestraintSet(_self, *args))
5541 
5542  if self.__class__ != RestraintSet:
5543  _director_objects.register(self)
5544 
5545 
5546 
5547 
5548  def unprotected_evaluate(self, da):
5549  r"""unprotected_evaluate(RestraintSet self, DerivativeAccumulator da) -> double"""
5550  return _IMP_kernel.RestraintSet_unprotected_evaluate(self, da)
5551 
5552  def get_type_name(self):
5553  r"""get_type_name(RestraintSet self) -> std::string"""
5554  return _IMP_kernel.RestraintSet_get_type_name(self)
5555 
5556  def get_version_info(self):
5557  r"""get_version_info(RestraintSet self) -> VersionInfo"""
5558  return _IMP_kernel.RestraintSet_get_version_info(self)
5559  __swig_destroy__ = _IMP_kernel.delete_RestraintSet
5560  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)
5561  def __set_restraints(self, obj): _list_util.set_varlist(self.restraints, obj)
5562  def __del_restraints(self): _list_util.del_varlist(self.restraints)
5563  restraints = property(__get_restraints, __set_restraints, __del_restraints, doc="List of ##ucnames")
5564 
5565  def remove_restraint(self, d):
5566  r"""remove_restraint(RestraintSet self, Restraint d)"""
5567  return _IMP_kernel.RestraintSet_remove_restraint(self, d)
5568 
5569  def _python_index_restraint(self, d, start, stop):
5570  r"""_python_index_restraint(RestraintSet self, Restraint d, unsigned int start, unsigned int stop) -> unsigned int"""
5571  return _IMP_kernel.RestraintSet__python_index_restraint(self, d, start, stop)
5572 
5573  def remove_restraints(self, d):
5574  r"""remove_restraints(RestraintSet self, IMP::Restraints const & d)"""
5575  return _IMP_kernel.RestraintSet_remove_restraints(self, d)
5576 
5577  def set_restraints(self, ps):
5578  r"""set_restraints(RestraintSet self, IMP::Restraints const & ps)"""
5579  return _IMP_kernel.RestraintSet_set_restraints(self, ps)
5580 
5581  def set_restraints_order(self, objs):
5582  r"""set_restraints_order(RestraintSet self, IMP::Restraints const & objs)"""
5583  return _IMP_kernel.RestraintSet_set_restraints_order(self, objs)
5584 
5585  def add_restraint(self, obj):
5586  r"""add_restraint(RestraintSet self, Restraint obj) -> unsigned int"""
5587  return _IMP_kernel.RestraintSet_add_restraint(self, obj)
5588 
5589  def add_restraints(self, objs):
5590  r"""add_restraints(RestraintSet self, IMP::Restraints const & objs)"""
5591  return _IMP_kernel.RestraintSet_add_restraints(self, objs)
5592 
5593  def clear_restraints(self):
5594  r"""clear_restraints(RestraintSet self)"""
5595  return _IMP_kernel.RestraintSet_clear_restraints(self)
5596 
5597  def get_number_of_restraints(self):
5598  r"""get_number_of_restraints(RestraintSet self) -> unsigned int"""
5599  return _IMP_kernel.RestraintSet_get_number_of_restraints(self)
5600 
5601  def get_has_restraints(self):
5602  r"""get_has_restraints(RestraintSet self) -> bool"""
5603  return _IMP_kernel.RestraintSet_get_has_restraints(self)
5604 
5605  def get_restraint(self, i):
5606  r"""get_restraint(RestraintSet self, unsigned int i) -> Restraint"""
5607  return _IMP_kernel.RestraintSet_get_restraint(self, i)
5608 
5609  def get_restraints(self):
5610  r"""get_restraints(RestraintSet self) -> IMP::Restraints"""
5611  return _IMP_kernel.RestraintSet_get_restraints(self)
5612 
5613  def erase_restraint(self, i):
5614  r"""erase_restraint(RestraintSet self, unsigned int i)"""
5615  return _IMP_kernel.RestraintSet_erase_restraint(self, i)
5616 
5617  def reserve_restraints(self, sz):
5618  r"""reserve_restraints(RestraintSet self, unsigned int sz)"""
5619  return _IMP_kernel.RestraintSet_reserve_restraints(self, sz)
5620 
5621  def get_non_sets_and_sets(self):
5622  r"""get_non_sets_and_sets(RestraintSet self) -> std::pair< IMP::RestraintsTemp,IMP::RestraintSetsTemp >"""
5623  return _IMP_kernel.RestraintSet_get_non_sets_and_sets(self)
5624 
5625  def do_get_inputs(self):
5626  r"""do_get_inputs(RestraintSet self) -> IMP::ModelObjectsTemp"""
5627  return _IMP_kernel.RestraintSet_do_get_inputs(self)
5628 
5629  def create_scoring_function(self, *args):
5630  r"""create_scoring_function(RestraintSet self, double weight=1.0, double max=std::numeric_limits< double >::max()) -> ScoringFunction"""
5631  return _IMP_kernel.RestraintSet_create_scoring_function(self, *args)
5632 
5633  def get_last_score(self):
5634  r"""get_last_score(RestraintSet self) -> double"""
5635  return _IMP_kernel.RestraintSet_get_last_score(self)
5636 
5637  def __str__(self):
5638  r"""__str__(RestraintSet self) -> std::string"""
5639  return _IMP_kernel.RestraintSet___str__(self)
5640 
5641  def __repr__(self):
5642  r"""__repr__(RestraintSet self) -> std::string"""
5643  return _IMP_kernel.RestraintSet___repr__(self)
5644 
5645  @staticmethod
5646  def get_from(o):
5647  return _object_cast_to_RestraintSet(o)
5648 
5649 
5650  def do_show(self, out):
5651  pass
5652 
5653  @staticmethod
5654  def get_from(o):
5655  return _object_cast_to_RestraintSet(o)
5656 
5657 
5658  def _get_as_binary(self):
5659  r"""_get_as_binary(RestraintSet self) -> PyObject *"""
5660  return _IMP_kernel.RestraintSet__get_as_binary(self)
5661 
5662  def _set_from_binary(self, p):
5663  r"""_set_from_binary(RestraintSet self, PyObject * p)"""
5664  return _IMP_kernel.RestraintSet__set_from_binary(self, p)
5665 
5666  def __getstate__(self):
5667  p = self._get_as_binary()
5668  if len(self.__dict__) > 1:
5669  d = self.__dict__.copy()
5670  del d['this']
5671  p = (d, p)
5672  return p
5673 
5674  def __setstate__(self, p):
5675  if not hasattr(self, 'this'):
5676  self.__init__()
5677  if isinstance(p, tuple):
5678  d, p = p
5679  self.__dict__.update(d)
5680  return self._set_from_binary(p)
5681 
5682 
5683  def _get_jax(self):
5684  jis = [r.get_derived_object()._get_jax() for r in self.restraints]
5685  funcs = [j.score_func for j in jis]
5686  keys = frozenset(x for j in jis for x in j._keys)
5687  def jax_sf(jm):
5688  if funcs:
5689  return sum(f(jm) for f in funcs)
5690  else:
5691  # sum([]) returns int, but we must return float
5692  return 0.
5693  return self._wrap_jax(jax_sf, keys=keys)
5694 
5695  def __disown__(self):
5696  self.this.disown()
5697  _IMP_kernel.disown_RestraintSet(self)
5698  return weakref.proxy(self)
5699 
5700  def do_destroy(self):
5701  r"""do_destroy(RestraintSet self)"""
5702  return _IMP_kernel.RestraintSet_do_destroy(self)
5703 
5704  def handle_set_has_required_score_states(self, arg0):
5705  r"""handle_set_has_required_score_states(RestraintSet self, bool arg0)"""
5706  return _IMP_kernel.RestraintSet_handle_set_has_required_score_states(self, arg0)
5707 
5708  def do_get_outputs(self):
5709  r"""do_get_outputs(RestraintSet self) -> IMP::ModelObjectsTemp"""
5710  return _IMP_kernel.RestraintSet_do_get_outputs(self)
5711 
5712  def do_get_interactions(self):
5713  r"""do_get_interactions(RestraintSet self) -> IMP::ModelObjectsTemps"""
5714  return _IMP_kernel.RestraintSet_do_get_interactions(self)
5715 
5716  def do_create_decomposition(self):
5717  r"""do_create_decomposition(RestraintSet self) -> IMP::Restraints"""
5718  return _IMP_kernel.RestraintSet_do_create_decomposition(self)
5719 
5720  def do_create_current_decomposition(self):
5721  r"""do_create_current_decomposition(RestraintSet self) -> IMP::Restraints"""
5722  return _IMP_kernel.RestraintSet_do_create_current_decomposition(self)
5723 
5724  def do_add_score_and_derivatives(self, sa):
5725  r"""do_add_score_and_derivatives(RestraintSet self, ScoreAccumulator sa)"""
5726  return _IMP_kernel.RestraintSet_do_add_score_and_derivatives(self, sa)
5727 
5728  def do_add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis):
5729  r"""do_add_score_and_derivatives_moved(RestraintSet self, ScoreAccumulator sa, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
5730  return _IMP_kernel.RestraintSet_do_add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis)
5731 
5732 # Register RestraintSet in _IMP_kernel:
5733 _IMP_kernel.RestraintSet_swigregister(RestraintSet)
5734 
5735 def get_restraints(rs):
5736  r"""get_restraints(IMP::RestraintsTemp const & rs) -> IMP::RestraintsTemp"""
5737  return _IMP_kernel.get_restraints(rs)
5738 
5739 def _check_particle(p, a):
5740  if (not p.get_is_active()):
5741  raise ValueError("Inactive Particle")
5742  if (type(a)() == a):
5743  raise IndexError("Cannot use default Index")
5744  if (not p.has_attribute(a)):
5745  raise IndexError("Particle does not have attribute")
5746 
5747 class Particle(ModelObject):
5748  r"""Proxy of C++ IMP::Particle class."""
5749 
5750  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
5751 
5752  def get_version_info(self):
5753  r"""get_version_info(Particle self) -> VersionInfo"""
5754  return _IMP_kernel.Particle_get_version_info(self)
5755  __swig_destroy__ = _IMP_kernel.delete_Particle
5756 
5757  def __init__(self, *args):
5758  r"""
5759  __init__(Particle self, Model m, std::string name) -> Particle
5760  __init__(Particle self, Model m) -> Particle
5761  __init__(Particle self) -> Particle
5762  """
5763  _IMP_kernel.Particle_swiginit(self, _IMP_kernel.new_Particle(*args))
5764 
5765  def get_float_keys(self):
5766  r"""get_float_keys(Particle self) -> IMP::FloatKeys"""
5767  return _IMP_kernel.Particle_get_float_keys(self)
5768 
5769  def get_floats_keys(self):
5770  r"""get_floats_keys(Particle self) -> IMP::FloatsKeys"""
5771  return _IMP_kernel.Particle_get_floats_keys(self)
5772 
5773  def get_int_keys(self):
5774  r"""get_int_keys(Particle self) -> IMP::IntKeys"""
5775  return _IMP_kernel.Particle_get_int_keys(self)
5776 
5777  def get_ints_keys(self):
5778  r"""get_ints_keys(Particle self) -> IMP::IntsKeys"""
5779  return _IMP_kernel.Particle_get_ints_keys(self)
5780 
5781  def get_string_keys(self):
5782  r"""get_string_keys(Particle self) -> IMP::StringKeys"""
5783  return _IMP_kernel.Particle_get_string_keys(self)
5784 
5785  def get_object_keys(self):
5786  r"""get_object_keys(Particle self) -> IMP::ObjectKeys"""
5787  return _IMP_kernel.Particle_get_object_keys(self)
5788 
5789  def add_cache_attribute(self, *args):
5790  r"""
5791  add_cache_attribute(Particle self, FloatKey name, IMP::Float value)
5792  add_cache_attribute(Particle self, FloatsKey name, IMP::Floats value)
5793  add_cache_attribute(Particle self, IntKey name, IMP::Int value)
5794  add_cache_attribute(Particle self, IntsKey name, IMP::Ints value)
5795  add_cache_attribute(Particle self, StringKey name, IMP::String value)
5796  add_cache_attribute(Particle self, ObjectKey name, Object value)
5797  add_cache_attribute(Particle self, IMP::WeakObjectKey name, Object value)
5798  """
5799  return _IMP_kernel.Particle_add_cache_attribute(self, *args)
5800 
5801  def get_weak_object_keys(self):
5802  r"""get_weak_object_keys(Particle self) -> IMP::WeakObjectKeys"""
5803  return _IMP_kernel.Particle_get_weak_object_keys(self)
5804 
5805  def add_to_derivative(self, *args):
5806  r"""
5807  add_to_derivative(Particle self, FloatKey key, IMP::Float value, DerivativeAccumulator da)
5808  add_to_derivative(Particle self, Vector3DDerivKey key, Vector3D value, DerivativeAccumulator da)
5809  add_to_derivative(Particle self, Vector4DDerivKey key, Vector4D value, DerivativeAccumulator da)
5810  """
5811  return _IMP_kernel.Particle_add_to_derivative(self, *args)
5812 
5813  def set_is_optimized(self, *args):
5814  r"""
5815  set_is_optimized(Particle self, FloatKey k, bool tf)
5816  set_is_optimized(Particle self, Vector3DDerivKey k, bool tf)
5817  set_is_optimized(Particle self, Vector4DDerivKey k, bool tf)
5818  """
5819  return _IMP_kernel.Particle_set_is_optimized(self, *args)
5820 
5821  def get_is_optimized(self, *args):
5822  r"""
5823  get_is_optimized(Particle self, FloatKey k) -> bool
5824  get_is_optimized(Particle self, Vector3DDerivKey k) -> bool
5825  get_is_optimized(Particle self, Vector4DDerivKey k) -> bool
5826  """
5827  return _IMP_kernel.Particle_get_is_optimized(self, *args)
5828 
5829  def get_derivative(self, *args):
5830  r"""
5831  get_derivative(Particle self, FloatKey k) -> IMP::Float
5832  get_derivative(Particle self, Vector3DDerivKey k) -> Vector3D
5833  get_derivative(Particle self, Vector4DDerivKey k) -> Vector4D
5834  """
5835  return _IMP_kernel.Particle_get_derivative(self, *args)
5836 
5837  def add_attribute(self, *args):
5838  r"""
5839  add_attribute(Particle self, FloatKey name, IMP::Float initial_value)
5840  add_attribute(Particle self, FloatsKey name, IMP::Floats initial_value)
5841  add_attribute(Particle self, IntKey name, IMP::Int initial_value)
5842  add_attribute(Particle self, IntsKey name, IMP::Ints initial_value)
5843  add_attribute(Particle self, StringKey name, IMP::String initial_value)
5844  add_attribute(Particle self, ObjectKey name, Object initial_value)
5845  add_attribute(Particle self, IMP::WeakObjectKey name, Object initial_value)
5846  add_attribute(Particle self, SparseStringKey name, IMP::String initial_value)
5847  add_attribute(Particle self, SparseIntKey name, IMP::Int initial_value)
5848  add_attribute(Particle self, SparseFloatKey name, IMP::Float initial_value)
5849  add_attribute(Particle self, SparseParticleIndexKey name, ParticleIndex initial_value)
5850  add_attribute(Particle self, FloatKey name, IMP::Float const initial_value, bool optimized)
5851  add_attribute(Particle self, ParticleIndexKey k, Particle v)
5852  """
5853  return _IMP_kernel.Particle_add_attribute(self, *args)
5854 
5855  def has_attribute(self, *args):
5856  r"""
5857  has_attribute(Particle self, FloatKey name) -> bool
5858  has_attribute(Particle self, FloatsKey name) -> bool
5859  has_attribute(Particle self, IntKey name) -> bool
5860  has_attribute(Particle self, IntsKey name) -> bool
5861  has_attribute(Particle self, StringKey name) -> bool
5862  has_attribute(Particle self, ObjectKey name) -> bool
5863  has_attribute(Particle self, IMP::WeakObjectKey name) -> bool
5864  has_attribute(Particle self, SparseStringKey name) -> bool
5865  has_attribute(Particle self, SparseIntKey name) -> bool
5866  has_attribute(Particle self, SparseFloatKey name) -> bool
5867  has_attribute(Particle self, SparseParticleIndexKey name) -> bool
5868  has_attribute(Particle self, ParticleIndexKey k) -> bool
5869  """
5870  return _IMP_kernel.Particle_has_attribute(self, *args)
5871 
5872  def set_value(self, *args):
5873  r"""
5874  set_value(Particle self, FloatKey name, IMP::Float value)
5875  set_value(Particle self, FloatsKey name, IMP::Floats value)
5876  set_value(Particle self, IntKey name, IMP::Int value)
5877  set_value(Particle self, IntsKey name, IMP::Ints value)
5878  set_value(Particle self, StringKey name, IMP::String value)
5879  set_value(Particle self, ObjectKey name, Object value)
5880  set_value(Particle self, IMP::WeakObjectKey name, Object value)
5881  set_value(Particle self, SparseStringKey name, IMP::String value)
5882  set_value(Particle self, SparseIntKey name, IMP::Int value)
5883  set_value(Particle self, SparseFloatKey name, IMP::Float value)
5884  set_value(Particle self, SparseParticleIndexKey name, ParticleIndex value)
5885  set_value(Particle self, ParticleIndexKey k, Particle v)
5886  """
5887  return _IMP_kernel.Particle_set_value(self, *args)
5888 
5889  def get_value(self, *args):
5890  r"""
5891  get_value(Particle self, FloatKey name) -> IMP::Float
5892  get_value(Particle self, FloatsKey name) -> IMP::Floats
5893  get_value(Particle self, IntKey name) -> IMP::Int
5894  get_value(Particle self, IntsKey name) -> IMP::Ints
5895  get_value(Particle self, StringKey name) -> IMP::String
5896  get_value(Particle self, ObjectKey name) -> Object
5897  get_value(Particle self, IMP::WeakObjectKey name) -> Object
5898  get_value(Particle self, SparseStringKey name) -> IMP::String
5899  get_value(Particle self, SparseIntKey name) -> IMP::Int
5900  get_value(Particle self, SparseFloatKey name) -> IMP::Float
5901  get_value(Particle self, SparseParticleIndexKey name) -> ParticleIndex
5902  get_value(Particle self, ParticleIndexKey k) -> Particle
5903  """
5904  return _IMP_kernel.Particle_get_value(self, *args)
5905 
5906  def remove_attribute(self, *args):
5907  r"""
5908  remove_attribute(Particle self, FloatKey name)
5909  remove_attribute(Particle self, FloatsKey name)
5910  remove_attribute(Particle self, IntKey name)
5911  remove_attribute(Particle self, IntsKey name)
5912  remove_attribute(Particle self, StringKey name)
5913  remove_attribute(Particle self, ObjectKey name)
5914  remove_attribute(Particle self, IMP::WeakObjectKey name)
5915  remove_attribute(Particle self, SparseStringKey name)
5916  remove_attribute(Particle self, SparseIntKey name)
5917  remove_attribute(Particle self, SparseFloatKey name)
5918  remove_attribute(Particle self, SparseParticleIndexKey name)
5919  remove_attribute(Particle self, ParticleIndexKey k)
5920  """
5921  return _IMP_kernel.Particle_remove_attribute(self, *args)
5922 
5923  def get_particle_keys(self):
5924  r"""get_particle_keys(Particle self) -> IMP::ParticleIndexKeys"""
5925  return _IMP_kernel.Particle_get_particle_keys(self)
5926 
5927  def show(self, *args):
5928  r"""show(Particle self, _ostream out=std::cout)"""
5929  return _IMP_kernel.Particle_show(self, *args)
5930 
5931  def get_is_active(self):
5932  r"""get_is_active(Particle self) -> bool"""
5933  return _IMP_kernel.Particle_get_is_active(self)
5934 
5935  def get_index(self):
5936  r"""get_index(Particle self) -> ParticleIndex"""
5937  return _IMP_kernel.Particle_get_index(self)
5938 
5939  def __eq__(self, *args):
5940  r"""
5941  __eq__(Particle self, Particle o) -> bool
5942  __eq__(Particle self, Decorator d) -> bool
5943  """
5944  return _IMP_kernel.Particle___eq__(self, *args)
5945 
5946  def __ne__(self, *args):
5947  r"""
5948  __ne__(Particle self, Particle o) -> bool
5949  __ne__(Particle self, Decorator d) -> bool
5950  """
5951  return _IMP_kernel.Particle___ne__(self, *args)
5952 
5953  def __le__(self, *args):
5954  r"""
5955  __le__(Particle self, Particle o) -> bool
5956  __le__(Particle self, Decorator d) -> bool
5957  """
5958  return _IMP_kernel.Particle___le__(self, *args)
5959 
5960  def __lt__(self, *args):
5961  r"""
5962  __lt__(Particle self, Particle o) -> bool
5963  __lt__(Particle self, Decorator d) -> bool
5964  """
5965  return _IMP_kernel.Particle___lt__(self, *args)
5966 
5967  def __ge__(self, *args):
5968  r"""
5969  __ge__(Particle self, Particle o) -> bool
5970  __ge__(Particle self, Decorator d) -> bool
5971  """
5972  return _IMP_kernel.Particle___ge__(self, *args)
5973 
5974  def __gt__(self, *args):
5975  r"""
5976  __gt__(Particle self, Particle o) -> bool
5977  __gt__(Particle self, Decorator d) -> bool
5978  """
5979  return _IMP_kernel.Particle___gt__(self, *args)
5980 
5981  __hash__ = ModelObject.__hash__
5982 
5983 
5984  def __str__(self):
5985  r"""__str__(Particle self) -> std::string"""
5986  return _IMP_kernel.Particle___str__(self)
5987 
5988  def __repr__(self):
5989  r"""__repr__(Particle self) -> std::string"""
5990  return _IMP_kernel.Particle___repr__(self)
5991 
5992  @staticmethod
5993  def get_from(o):
5994  return _object_cast_to_Particle(o)
5995 
5996 
5997  def _get_as_binary(self):
5998  r"""_get_as_binary(Particle self) -> PyObject *"""
5999  return _IMP_kernel.Particle__get_as_binary(self)
6000 
6001  def _set_from_binary(self, p):
6002  r"""_set_from_binary(Particle self, PyObject * p)"""
6003  return _IMP_kernel.Particle__set_from_binary(self, p)
6004 
6005  def __getstate__(self):
6006  p = self._get_as_binary()
6007  if len(self.__dict__) > 1:
6008  d = self.__dict__.copy()
6009  del d['this']
6010  p = (d, p)
6011  return p
6012 
6013  def __setstate__(self, p):
6014  if not hasattr(self, 'this'):
6015  self.__init__()
6016  if isinstance(p, tuple):
6017  d, p = p
6018  self.__dict__.update(d)
6019  return self._set_from_binary(p)
6020 
6021 
6022 # Register Particle in _IMP_kernel:
6023 _IMP_kernel.Particle_swigregister(Particle)
6024 class _ParticleAdaptor(_InputAdaptor):
6025  r"""Proxy of C++ IMP::ParticleAdaptor class."""
6026 
6027  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
6028  __repr__ = _swig_repr
6029 
6030  def __init__(self, *args):
6031  r"""
6032  __init__(_ParticleAdaptor self) -> _ParticleAdaptor
6033  __init__(_ParticleAdaptor self, Particle p) -> _ParticleAdaptor
6034  __init__(_ParticleAdaptor self, Decorator d) -> _ParticleAdaptor
6035  """
6036  _IMP_kernel._ParticleAdaptor_swiginit(self, _IMP_kernel.new__ParticleAdaptor(*args))
6037 
6038  def get_model(self):
6039  r"""get_model(_ParticleAdaptor self) -> Model"""
6040  return _IMP_kernel._ParticleAdaptor_get_model(self)
6041 
6042  def get_particle_index(self):
6043  r"""get_particle_index(_ParticleAdaptor self) -> ParticleIndex"""
6044  return _IMP_kernel._ParticleAdaptor_get_particle_index(self)
6045  __swig_destroy__ = _IMP_kernel.delete__ParticleAdaptor
6046 
6047 # Register _ParticleAdaptor in _IMP_kernel:
6048 _IMP_kernel._ParticleAdaptor_swigregister(_ParticleAdaptor)
6049 class _DependencyGraphVertexIndex(object):
6050  r"""Proxy of C++ IMP::DependencyGraphVertexIndex class."""
6051 
6052  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
6053  __repr__ = _swig_repr
6054 
6055  def __init__(self):
6056  r"""__init__(_DependencyGraphVertexIndex self) -> _DependencyGraphVertexIndex"""
6057  _IMP_kernel._DependencyGraphVertexIndex_swiginit(self, _IMP_kernel.new__DependencyGraphVertexIndex())
6058  __swig_destroy__ = _IMP_kernel.delete__DependencyGraphVertexIndex
6059 
6060 # Register _DependencyGraphVertexIndex in _IMP_kernel:
6061 _IMP_kernel._DependencyGraphVertexIndex_swigregister(_DependencyGraphVertexIndex)
6062 
6063 def show_as_graphviz(name, out):
6064  r"""show_as_graphviz(IMP::DependencyGraph const & name, TextOutput out)"""
6065  return _IMP_kernel.show_as_graphviz(name, out)
6066 
6067 def get_vertex_index(g):
6068  r"""get_vertex_index(IMP::DependencyGraph const & g) -> _DependencyGraphVertexIndex"""
6069  return _IMP_kernel.get_vertex_index(g)
6070 
6071 def get_dependency_graph(m):
6072  r"""get_dependency_graph(Model m) -> IMP::DependencyGraph"""
6073  return _IMP_kernel.get_dependency_graph(m)
6074 
6076  r"""get_pruned_dependency_graph(Model m) -> IMP::DependencyGraph"""
6077  return _IMP_kernel.get_pruned_dependency_graph(m)
6078 
6079 def get_dependent_particles(p, all, dg, index):
6080  r"""get_dependent_particles(ModelObject p, IMP::ModelObjectsTemp const & all, IMP::DependencyGraph const & dg, _DependencyGraphVertexIndex index) -> IMP::ParticlesTemp"""
6081  return _IMP_kernel.get_dependent_particles(p, all, dg, index)
6082 
6083 def get_required_score_states(*args):
6084  r"""
6085  get_required_score_states(IMP::ModelObjectsTemp const & mos, IMP::ScoreStatesTemp exclude=IMP::ScoreStatesTemp()) -> IMP::ScoreStatesTemp
6086  get_required_score_states(ModelObject p, IMP::ModelObjectsTemp const & all, IMP::DependencyGraph const & dg, _DependencyGraphVertexIndex index) -> IMP::ScoreStatesTemp
6087  get_required_score_states(Model m, ParticleIndex pi) -> IMP::ScoreStatesTemp
6088  """
6089  return _IMP_kernel.get_required_score_states(*args)
6090 class ScoringFunction(ModelObject):
6091  r"""Proxy of C++ IMP::ScoringFunction class."""
6092 
6093  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
6094 
6095  def do_add_score_and_derivatives(self, sa, ss):
6096  r"""do_add_score_and_derivatives(ScoringFunction self, ScoreAccumulator sa, IMP::ScoreStatesTemp const & ss)"""
6097  return _IMP_kernel.ScoringFunction_do_add_score_and_derivatives(self, sa, ss)
6098 
6099  def do_add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis, ss):
6100  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)"""
6101  return _IMP_kernel.ScoringFunction_do_add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis, ss)
6102 
6103  def get_score_accumulator_if_below(self, deriv, max):
6104  r"""get_score_accumulator_if_below(ScoringFunction self, bool deriv, double max) -> ScoreAccumulator"""
6105  return _IMP_kernel.ScoringFunction_get_score_accumulator_if_below(self, deriv, max)
6106 
6107  def get_score_accumulator_if_good(self, deriv):
6108  r"""get_score_accumulator_if_good(ScoringFunction self, bool deriv) -> ScoreAccumulator"""
6109  return _IMP_kernel.ScoringFunction_get_score_accumulator_if_good(self, deriv)
6110 
6111  def get_score_accumulator(self, deriv):
6112  r"""get_score_accumulator(ScoringFunction self, bool deriv) -> ScoreAccumulator"""
6113  return _IMP_kernel.ScoringFunction_get_score_accumulator(self, deriv)
6114 
6115  def __init__(self, *args):
6116  r"""
6117  __init__(ScoringFunction self, Model m, std::string name) -> ScoringFunction
6118  __init__(ScoringFunction self) -> ScoringFunction
6119  """
6120  if self.__class__ == ScoringFunction:
6121  _self = None
6122  else:
6123  _self = self
6124  _IMP_kernel.ScoringFunction_swiginit(self, _IMP_kernel.new_ScoringFunction(_self, *args))
6125 
6126  if self.__class__ != ScoringFunction:
6127  _director_objects.register(self)
6128 
6129 
6130 
6131 
6132  def do_get_outputs(self):
6133  r"""do_get_outputs(ScoringFunction self) -> IMP::ModelObjectsTemp"""
6134  return _IMP_kernel.ScoringFunction_do_get_outputs(self)
6135 
6136  def evaluate(self, derivatives):
6137  r"""evaluate(ScoringFunction self, bool derivatives) -> double"""
6138  return _IMP_kernel.ScoringFunction_evaluate(self, derivatives)
6139 
6140  def evaluate_if_good(self, derivatives):
6141  r"""evaluate_if_good(ScoringFunction self, bool derivatives) -> double"""
6142  return _IMP_kernel.ScoringFunction_evaluate_if_good(self, derivatives)
6143 
6144  def evaluate_if_below(self, derivatives, max):
6145  r"""evaluate_if_below(ScoringFunction self, bool derivatives, double max) -> double"""
6146  return _IMP_kernel.ScoringFunction_evaluate_if_below(self, derivatives, max)
6147 
6148  def evaluate_moved(self, derivatives, moved_pis, reset_pis):
6149  r"""evaluate_moved(ScoringFunction self, bool derivatives, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis) -> double"""
6150  return _IMP_kernel.ScoringFunction_evaluate_moved(self, derivatives, moved_pis, reset_pis)
6151 
6152  def evaluate_moved_if_below(self, derivatives, moved_pis, reset_pis, max):
6153  r"""evaluate_moved_if_below(ScoringFunction self, bool derivatives, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis, double max) -> double"""
6154  return _IMP_kernel.ScoringFunction_evaluate_moved_if_below(self, derivatives, moved_pis, reset_pis, max)
6155 
6156  def evaluate_moved_if_good(self, derivatives, moved_pis, reset_pis):
6157  r"""evaluate_moved_if_good(ScoringFunction self, bool derivatives, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis) -> double"""
6158  return _IMP_kernel.ScoringFunction_evaluate_moved_if_good(self, derivatives, moved_pis, reset_pis)
6159 
6160  def get_had_good_score(self):
6161  r"""get_had_good_score(ScoringFunction self) -> bool"""
6162  return _IMP_kernel.ScoringFunction_get_had_good_score(self)
6163 
6164  def get_last_score(self):
6165  r"""get_last_score(ScoringFunction self) -> double"""
6166  return _IMP_kernel.ScoringFunction_get_last_score(self)
6167 
6168  def create_restraints(self):
6169  r"""create_restraints(ScoringFunction self) -> IMP::Restraints"""
6170  return _IMP_kernel.ScoringFunction_create_restraints(self)
6171 
6172  def get_single_restraint(self):
6173  r"""get_single_restraint(ScoringFunction self) -> Restraint"""
6174  return _IMP_kernel.ScoringFunction_get_single_restraint(self)
6175 
6176  def __str__(self):
6177  r"""__str__(ScoringFunction self) -> std::string"""
6178  return _IMP_kernel.ScoringFunction___str__(self)
6179 
6180  def __repr__(self):
6181  r"""__repr__(ScoringFunction self) -> std::string"""
6182  return _IMP_kernel.ScoringFunction___repr__(self)
6183 
6184  @staticmethod
6185  def get_from(o):
6186  return _object_cast_to_ScoringFunction(o)
6187 
6188 
6189  def do_show(self, out):
6190  pass
6191 
6192  @staticmethod
6193  def get_from(o):
6194  return _object_cast_to_ScoringFunction(o)
6195 
6196 
6197  def _get_jax(self):
6198  r = self.get_single_restraint()
6199  if r is None:
6200  raise NotImplementedError(
6201  f"No JAX implementation for {self} ({type(self)})")
6202  else:
6203  return r.get_derived_object()._get_jax()
6204 
6205  def _evaluate_jax(self):
6206  """Similar to evaluate(False), but using JAX.
6207  This is intended to be useful for testing purposes. It will likely
6208  not be particularly fast as it will copy the IMP Model and
6209  jax.jit-compile the scoring function each time."""
6210  import jax
6211  ji = self._get_jax()
6212  jm = ji.get_jax_model()
6213  j = jax.jit(ji.score_func)
6214  return j(jm)
6215 
6216  __swig_destroy__ = _IMP_kernel.delete_ScoringFunction
6217  def __disown__(self):
6218  self.this.disown()
6219  _IMP_kernel.disown_ScoringFunction(self)
6220  return weakref.proxy(self)
6221 
6222  def do_destroy(self):
6223  r"""do_destroy(ScoringFunction self)"""
6224  return _IMP_kernel.ScoringFunction_do_destroy(self)
6225 
6226  def handle_set_has_required_score_states(self, arg0):
6227  r"""handle_set_has_required_score_states(ScoringFunction self, bool arg0)"""
6228  return _IMP_kernel.ScoringFunction_handle_set_has_required_score_states(self, arg0)
6229 
6230  def do_get_inputs(self):
6231  r"""do_get_inputs(ScoringFunction self) -> IMP::ModelObjectsTemp"""
6232  return _IMP_kernel.ScoringFunction_do_get_inputs(self)
6233 
6234  def do_get_interactions(self):
6235  r"""do_get_interactions(ScoringFunction self) -> IMP::ModelObjectsTemps"""
6236  return _IMP_kernel.ScoringFunction_do_get_interactions(self)
6237 
6238 # Register ScoringFunction in _IMP_kernel:
6239 _IMP_kernel.ScoringFunction_swigregister(ScoringFunction)
6240 
6241 def create_decomposition(*args):
6242  r"""
6243  create_decomposition(IMP::RestraintsTemp const & rs) -> IMP::Restraints
6244  create_decomposition(ScoringFunction sf) -> IMP::ScoringFunctions
6245  """
6246  return _IMP_kernel.create_decomposition(*args)
6247 class _ScoringFunctionAdaptor(_InputAdaptor):
6248  r"""Proxy of C++ IMP::ScoringFunctionAdaptor class."""
6249 
6250  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
6251  __repr__ = _swig_repr
6252 
6253  def __init__(self, *args):
6254  r"""
6255  __init__(_ScoringFunctionAdaptor self) -> _ScoringFunctionAdaptor
6256  __init__(_ScoringFunctionAdaptor self, ScoringFunction sf) -> _ScoringFunctionAdaptor
6257  __init__(_ScoringFunctionAdaptor self, IMP::RestraintsTemp const & sf) -> _ScoringFunctionAdaptor
6258  __init__(_ScoringFunctionAdaptor self, IMP::Restraints const & sf) -> _ScoringFunctionAdaptor
6259  __init__(_ScoringFunctionAdaptor self, Restraint sf) -> _ScoringFunctionAdaptor
6260  """
6261  _IMP_kernel._ScoringFunctionAdaptor_swiginit(self, _IMP_kernel.new__ScoringFunctionAdaptor(*args))
6262  __swig_destroy__ = _IMP_kernel.delete__ScoringFunctionAdaptor
6263 
6264 # Register _ScoringFunctionAdaptor in _IMP_kernel:
6265 _IMP_kernel._ScoringFunctionAdaptor_swigregister(_ScoringFunctionAdaptor)
6266 
6267 def show_restraint_hierarchy(*args):
6268  r"""show_restraint_hierarchy(_ScoringFunctionAdaptor rs, _ostream out=std::cout)"""
6269  return _IMP_kernel.show_restraint_hierarchy(*args)
6270 class Undecorator(Object):
6271  r"""Proxy of C++ IMP::Undecorator class."""
6272 
6273  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
6274 
6275  def __init__(self, m, name):
6276  r"""__init__(Undecorator self, Model m, std::string name) -> Undecorator"""
6277  if self.__class__ == Undecorator:
6278  _self = None
6279  else:
6280  _self = self
6281  _IMP_kernel.Undecorator_swiginit(self, _IMP_kernel.new_Undecorator(_self, m, name))
6282 
6283  if self.__class__ != Undecorator:
6284  _director_objects.register(self)
6285 
6286 
6287 
6288 
6289  def teardown(self, pi):
6290  r"""teardown(Undecorator self, ParticleIndex pi)"""
6291  return _IMP_kernel.Undecorator_teardown(self, pi)
6292 
6293  def __str__(self):
6294  r"""__str__(Undecorator self) -> std::string"""
6295  return _IMP_kernel.Undecorator___str__(self)
6296 
6297  def __repr__(self):
6298  r"""__repr__(Undecorator self) -> std::string"""
6299  return _IMP_kernel.Undecorator___repr__(self)
6300 
6301  @staticmethod
6302  def get_from(o):
6303  return _object_cast_to_Undecorator(o)
6304 
6305 
6306  def do_show(self, out):
6307  pass
6308 
6309  @staticmethod
6310  def get_from(o):
6311  return _object_cast_to_Undecorator(o)
6312 
6313  __swig_destroy__ = _IMP_kernel.delete_Undecorator
6314  def __disown__(self):
6315  self.this.disown()
6316  _IMP_kernel.disown_Undecorator(self)
6317  return weakref.proxy(self)
6318 
6319  def do_destroy(self):
6320  r"""do_destroy(Undecorator self)"""
6321  return _IMP_kernel.Undecorator_do_destroy(self)
6322 
6323 # Register Undecorator in _IMP_kernel:
6324 _IMP_kernel.Undecorator_swigregister(Undecorator)
6325 class Model(Object):
6326  r"""Proxy of C++ IMP::Model class."""
6327 
6328  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
6329 
6330  def __init__(self, *args):
6331  r"""__init__(Model self, std::string name="Model %1%") -> Model"""
6332  _IMP_kernel.Model_swiginit(self, _IMP_kernel.new_Model(*args))
6333 
6334  if self not in _models_set:
6335  _models_set.add(self)
6336 
6337 
6338 
6339 
6340  def clear_particle_caches(self, pi):
6341  r"""clear_particle_caches(Model self, ParticleIndex pi)"""
6342  return _IMP_kernel.Model_clear_particle_caches(self, pi)
6343 
6344  def add_particle(self, name):
6345  r"""add_particle(Model self, std::string name) -> ParticleIndex"""
6346  return _IMP_kernel.Model_add_particle(self, name)
6347 
6348  def get_particle_name(self, pi):
6349  r"""get_particle_name(Model self, ParticleIndex pi) -> std::string"""
6350  return _IMP_kernel.Model_get_particle_name(self, pi)
6351 
6352  def add_undecorator(self, pi, d):
6353  r"""add_undecorator(Model self, ParticleIndex pi, Undecorator d)"""
6354  return _IMP_kernel.Model_add_undecorator(self, pi, d)
6355 
6356  def get_dependent_restraints_uncached(self, pi):
6357  r"""get_dependent_restraints_uncached(Model self, ParticleIndex pi) -> IMP::RestraintsTemp"""
6358  return _IMP_kernel.Model_get_dependent_restraints_uncached(self, pi)
6359 
6360  def get_dependent_particles_uncached(self, pi):
6361  r"""get_dependent_particles_uncached(Model self, ParticleIndex pi) -> IMP::ParticlesTemp"""
6362  return _IMP_kernel.Model_get_dependent_particles_uncached(self, pi)
6363 
6364  def get_dependent_score_states_uncached(self, pi):
6365  r"""get_dependent_score_states_uncached(Model self, ParticleIndex pi) -> IMP::ScoreStatesTemp"""
6366  return _IMP_kernel.Model_get_dependent_score_states_uncached(self, pi)
6367  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)
6368  def __set_score_states(self, obj): _list_util.set_varlist(self.score_states, obj)
6369  def __del_score_states(self): _list_util.del_varlist(self.score_states)
6370  score_states = property(__get_score_states, __set_score_states, __del_score_states, doc="List of ##ucnames")
6371 
6372  def remove_score_state(self, d):
6373  r"""remove_score_state(Model self, ScoreState d)"""
6374  return _IMP_kernel.Model_remove_score_state(self, d)
6375 
6376  def _python_index_score_state(self, d, start, stop):
6377  r"""_python_index_score_state(Model self, ScoreState d, unsigned int start, unsigned int stop) -> unsigned int"""
6378  return _IMP_kernel.Model__python_index_score_state(self, d, start, stop)
6379 
6380  def remove_score_states(self, d):
6381  r"""remove_score_states(Model self, IMP::ScoreStates const & d)"""
6382  return _IMP_kernel.Model_remove_score_states(self, d)
6383 
6384  def set_score_states(self, ps):
6385  r"""set_score_states(Model self, IMP::ScoreStates const & ps)"""
6386  return _IMP_kernel.Model_set_score_states(self, ps)
6387 
6388  def set_score_states_order(self, objs):
6389  r"""set_score_states_order(Model self, IMP::ScoreStates const & objs)"""
6390  return _IMP_kernel.Model_set_score_states_order(self, objs)
6391 
6392  def add_score_state(self, obj):
6393  r"""add_score_state(Model self, ScoreState obj) -> unsigned int"""
6394  return _IMP_kernel.Model_add_score_state(self, obj)
6395 
6396  def add_score_states(self, objs):
6397  r"""add_score_states(Model self, IMP::ScoreStates const & objs)"""
6398  return _IMP_kernel.Model_add_score_states(self, objs)
6399 
6400  def clear_score_states(self):
6401  r"""clear_score_states(Model self)"""
6402  return _IMP_kernel.Model_clear_score_states(self)
6403 
6404  def get_number_of_score_states(self):
6405  r"""get_number_of_score_states(Model self) -> unsigned int"""
6406  return _IMP_kernel.Model_get_number_of_score_states(self)
6407 
6408  def get_has_score_states(self):
6409  r"""get_has_score_states(Model self) -> bool"""
6410  return _IMP_kernel.Model_get_has_score_states(self)
6411 
6412  def get_score_state(self, i):
6413  r"""get_score_state(Model self, unsigned int i) -> ScoreState"""
6414  return _IMP_kernel.Model_get_score_state(self, i)
6415 
6416  def get_score_states(self):
6417  r"""get_score_states(Model self) -> IMP::ScoreStates"""
6418  return _IMP_kernel.Model_get_score_states(self)
6419 
6420  def erase_score_state(self, i):
6421  r"""erase_score_state(Model self, unsigned int i)"""
6422  return _IMP_kernel.Model_erase_score_state(self, i)
6423 
6424  def reserve_score_states(self, sz):
6425  r"""reserve_score_states(Model self, unsigned int sz)"""
6426  return _IMP_kernel.Model_reserve_score_states(self, sz)
6427 
6428  def update(self):
6429  r"""update(Model self)"""
6430  return _IMP_kernel.Model_update(self)
6431 
6432  def get_ordered_score_states(self):
6433  r"""get_ordered_score_states(Model self) -> IMP::ScoreStatesTemp"""
6434  return _IMP_kernel.Model_get_ordered_score_states(self)
6435 
6436  def add_cache_attribute(self, *args):
6437  r"""
6438  add_cache_attribute(Model self, FloatKey attribute_key, ParticleIndex particle, IMP::Float value)
6439  add_cache_attribute(Model self, IntKey attribute_key, ParticleIndex particle, IMP::Int value)
6440  add_cache_attribute(Model self, FloatsKey attribute_key, ParticleIndex particle, IMP::Floats value)
6441  add_cache_attribute(Model self, Vector3DKey attribute_key, ParticleIndex particle, Vector3D value)
6442  add_cache_attribute(Model self, Vector4DKey attribute_key, ParticleIndex particle, Vector4D value)
6443  add_cache_attribute(Model self, Vector3DDerivKey attribute_key, ParticleIndex particle, Vector3D value)
6444  add_cache_attribute(Model self, Vector4DDerivKey attribute_key, ParticleIndex particle, Vector4D value)
6445  add_cache_attribute(Model self, IntsKey attribute_key, ParticleIndex particle, IMP::Ints value)
6446  add_cache_attribute(Model self, StringKey attribute_key, ParticleIndex particle, IMP::String value)
6447  add_cache_attribute(Model self, ParticleIndexesKey attribute_key, ParticleIndex particle, IMP::ParticleIndexes value)
6448  add_cache_attribute(Model self, ParticleIndexKey attribute_key, ParticleIndex particle, ParticleIndex value)
6449  add_cache_attribute(Model self, ObjectKey attribute_key, ParticleIndex particle, Object value)
6450  add_cache_attribute(Model self, IMP::WeakObjectKey attribute_key, ParticleIndex particle, Object value)
6451  """
6452  return _IMP_kernel.Model_add_cache_attribute(self, *args)
6453 
6454  def add_attribute(self, *args):
6455  r"""
6456  add_attribute(Model self, FloatKey attribute_key, ParticleIndex particle, IMP::Float value)
6457  add_attribute(Model self, IntKey attribute_key, ParticleIndex particle, IMP::Int value)
6458  add_attribute(Model self, FloatsKey attribute_key, ParticleIndex particle, IMP::Floats value)
6459  add_attribute(Model self, Vector3DKey attribute_key, ParticleIndex particle, Vector3D value)
6460  add_attribute(Model self, Vector4DKey attribute_key, ParticleIndex particle, Vector4D value)
6461  add_attribute(Model self, Vector3DDerivKey attribute_key, ParticleIndex particle, Vector3D value)
6462  add_attribute(Model self, Vector4DDerivKey attribute_key, ParticleIndex particle, Vector4D value)
6463  add_attribute(Model self, IntsKey attribute_key, ParticleIndex particle, IMP::Ints value)
6464  add_attribute(Model self, StringKey attribute_key, ParticleIndex particle, IMP::String value)
6465  add_attribute(Model self, ParticleIndexesKey attribute_key, ParticleIndex particle, IMP::ParticleIndexes value)
6466  add_attribute(Model self, ParticleIndexKey attribute_key, ParticleIndex particle, ParticleIndex value)
6467  add_attribute(Model self, ObjectKey attribute_key, ParticleIndex particle, Object value)
6468  add_attribute(Model self, IMP::WeakObjectKey attribute_key, ParticleIndex particle, Object value)
6469  add_attribute(Model self, SparseStringKey attribute_key, ParticleIndex particle, IMP::String value)
6470  add_attribute(Model self, SparseIntKey attribute_key, ParticleIndex particle, IMP::Int value)
6471  add_attribute(Model self, SparseFloatKey attribute_key, ParticleIndex particle, IMP::Float value)
6472  add_attribute(Model self, SparseParticleIndexKey attribute_key, ParticleIndex particle, ParticleIndex value)
6473  """
6474  return _IMP_kernel.Model_add_attribute(self, *args)
6475 
6476  def remove_attribute(self, *args):
6477  r"""
6478  remove_attribute(Model self, FloatKey attribute_key, ParticleIndex particle)
6479  remove_attribute(Model self, IntKey attribute_key, ParticleIndex particle)
6480  remove_attribute(Model self, FloatsKey attribute_key, ParticleIndex particle)
6481  remove_attribute(Model self, Vector3DKey attribute_key, ParticleIndex particle)
6482  remove_attribute(Model self, Vector4DKey attribute_key, ParticleIndex particle)
6483  remove_attribute(Model self, Vector3DDerivKey attribute_key, ParticleIndex particle)
6484  remove_attribute(Model self, Vector4DDerivKey attribute_key, ParticleIndex particle)
6485  remove_attribute(Model self, IntsKey attribute_key, ParticleIndex particle)
6486  remove_attribute(Model self, StringKey attribute_key, ParticleIndex particle)
6487  remove_attribute(Model self, ParticleIndexesKey attribute_key, ParticleIndex particle)
6488  remove_attribute(Model self, ParticleIndexKey attribute_key, ParticleIndex particle)
6489  remove_attribute(Model self, ObjectKey attribute_key, ParticleIndex particle)
6490  remove_attribute(Model self, IMP::WeakObjectKey attribute_key, ParticleIndex particle)
6491  remove_attribute(Model self, SparseStringKey attribute_key, ParticleIndex particle)
6492  remove_attribute(Model self, SparseIntKey attribute_key, ParticleIndex particle)
6493  remove_attribute(Model self, SparseFloatKey attribute_key, ParticleIndex particle)
6494  remove_attribute(Model self, SparseParticleIndexKey attribute_key, ParticleIndex particle)
6495  """
6496  return _IMP_kernel.Model_remove_attribute(self, *args)
6497 
6498  def get_has_attribute(self, *args):
6499  r"""
6500  get_has_attribute(Model self, FloatKey attribute_key, ParticleIndex particle) -> bool
6501  get_has_attribute(Model self, IntKey attribute_key, ParticleIndex particle) -> bool
6502  get_has_attribute(Model self, FloatsKey attribute_key, ParticleIndex particle) -> bool
6503  get_has_attribute(Model self, Vector3DKey attribute_key, ParticleIndex particle) -> bool
6504  get_has_attribute(Model self, Vector4DKey attribute_key, ParticleIndex particle) -> bool
6505  get_has_attribute(Model self, Vector3DDerivKey attribute_key, ParticleIndex particle) -> bool
6506  get_has_attribute(Model self, Vector4DDerivKey attribute_key, ParticleIndex particle) -> bool
6507  get_has_attribute(Model self, IntsKey attribute_key, ParticleIndex particle) -> bool
6508  get_has_attribute(Model self, StringKey attribute_key, ParticleIndex particle) -> bool
6509  get_has_attribute(Model self, ParticleIndexesKey attribute_key, ParticleIndex particle) -> bool
6510  get_has_attribute(Model self, ParticleIndexKey attribute_key, ParticleIndex particle) -> bool
6511  get_has_attribute(Model self, ObjectKey attribute_key, ParticleIndex particle) -> bool
6512  get_has_attribute(Model self, IMP::WeakObjectKey attribute_key, ParticleIndex particle) -> bool
6513  get_has_attribute(Model self, SparseStringKey attribute_key, ParticleIndex particle) -> bool
6514  get_has_attribute(Model self, SparseIntKey attribute_key, ParticleIndex particle) -> bool
6515  get_has_attribute(Model self, SparseFloatKey attribute_key, ParticleIndex particle) -> bool
6516  get_has_attribute(Model self, SparseParticleIndexKey attribute_key, ParticleIndex particle) -> bool
6517  """
6518  return _IMP_kernel.Model_get_has_attribute(self, *args)
6519 
6520  def set_attribute(self, *args):
6521  r"""
6522  set_attribute(Model self, FloatKey attribute_key, ParticleIndex particle, IMP::Float value)
6523  set_attribute(Model self, IntKey attribute_key, ParticleIndex particle, IMP::Int value)
6524  set_attribute(Model self, FloatsKey attribute_key, ParticleIndex particle, IMP::Floats value)
6525  set_attribute(Model self, Vector3DKey attribute_key, ParticleIndex particle, Vector3D value)
6526  set_attribute(Model self, Vector4DKey attribute_key, ParticleIndex particle, Vector4D value)
6527  set_attribute(Model self, Vector3DDerivKey attribute_key, ParticleIndex particle, Vector3D value)
6528  set_attribute(Model self, Vector4DDerivKey attribute_key, ParticleIndex particle, Vector4D value)
6529  set_attribute(Model self, IntsKey attribute_key, ParticleIndex particle, IMP::Ints value)
6530  set_attribute(Model self, StringKey attribute_key, ParticleIndex particle, IMP::String value)
6531  set_attribute(Model self, ParticleIndexesKey attribute_key, ParticleIndex particle, IMP::ParticleIndexes value)
6532  set_attribute(Model self, ParticleIndexKey attribute_key, ParticleIndex particle, ParticleIndex value)
6533  set_attribute(Model self, ObjectKey attribute_key, ParticleIndex particle, Object value)
6534  set_attribute(Model self, IMP::WeakObjectKey attribute_key, ParticleIndex particle, Object value)
6535  set_attribute(Model self, SparseStringKey attribute_key, ParticleIndex particle, IMP::String value)
6536  set_attribute(Model self, SparseIntKey attribute_key, ParticleIndex particle, IMP::Int value)
6537  set_attribute(Model self, SparseFloatKey attribute_key, ParticleIndex particle, IMP::Float value)
6538  set_attribute(Model self, SparseParticleIndexKey attribute_key, ParticleIndex particle, ParticleIndex value)
6539  """
6540  return _IMP_kernel.Model_set_attribute(self, *args)
6541 
6542  def get_attribute(self, *args):
6543  r"""
6544  get_attribute(Model self, FloatKey attribute_key, ParticleIndex particle) -> IMP::Float
6545  get_attribute(Model self, IntKey attribute_key, ParticleIndex particle) -> IMP::Int
6546  get_attribute(Model self, FloatsKey attribute_key, ParticleIndex particle) -> IMP::Floats
6547  get_attribute(Model self, Vector3DKey attribute_key, ParticleIndex particle) -> Vector3D
6548  get_attribute(Model self, Vector4DKey attribute_key, ParticleIndex particle) -> Vector4D
6549  get_attribute(Model self, Vector3DDerivKey attribute_key, ParticleIndex particle) -> Vector3D
6550  get_attribute(Model self, Vector4DDerivKey attribute_key, ParticleIndex particle) -> Vector4D
6551  get_attribute(Model self, IntsKey attribute_key, ParticleIndex particle) -> IMP::Ints
6552  get_attribute(Model self, StringKey attribute_key, ParticleIndex particle) -> IMP::String
6553  get_attribute(Model self, ParticleIndexesKey attribute_key, ParticleIndex particle) -> IMP::ParticleIndexes
6554  get_attribute(Model self, ParticleIndexKey attribute_key, ParticleIndex particle) -> ParticleIndex
6555  get_attribute(Model self, ObjectKey attribute_key, ParticleIndex particle) -> Object
6556  get_attribute(Model self, IMP::WeakObjectKey attribute_key, ParticleIndex particle) -> Object
6557  get_attribute(Model self, SparseStringKey attribute_key, ParticleIndex particle) -> IMP::String
6558  get_attribute(Model self, SparseIntKey attribute_key, ParticleIndex particle) -> IMP::Int
6559  get_attribute(Model self, SparseFloatKey attribute_key, ParticleIndex particle) -> IMP::Float
6560  get_attribute(Model self, SparseParticleIndexKey attribute_key, ParticleIndex particle) -> ParticleIndex
6561  """
6562  return _IMP_kernel.Model_get_attribute(self, *args)
6563 
6564  def set_is_optimized(self, *args):
6565  r"""
6566  set_is_optimized(Model self, Vector3DDerivKey arg2, ParticleIndex arg3, bool arg4)
6567  set_is_optimized(Model self, Vector4DDerivKey arg2, ParticleIndex arg3, bool arg4)
6568  set_is_optimized(Model self, FloatKey arg2, ParticleIndex arg3, bool arg4)
6569  """
6570  return _IMP_kernel.Model_set_is_optimized(self, *args)
6571 
6572  def add_to_derivative(self, *args):
6573  r"""
6574  add_to_derivative(Model self, Vector3DDerivKey attribute_key, ParticleIndex particle, Vector3D v, DerivativeAccumulator da)
6575  add_to_derivative(Model self, Vector4DDerivKey attribute_key, ParticleIndex particle, Vector4D v, DerivativeAccumulator da)
6576  add_to_derivative(Model self, FloatKey k, ParticleIndex particle, double v, DerivativeAccumulator da)
6577  """
6578  return _IMP_kernel.Model_add_to_derivative(self, *args)
6579 
6580  def get_particle(self, p):
6581  r"""get_particle(Model self, ParticleIndex p) -> Particle"""
6582  return _IMP_kernel.Model_get_particle(self, p)
6583 
6584  def get_has_particle(self, p):
6585  r"""get_has_particle(Model self, ParticleIndex p) -> bool"""
6586  return _IMP_kernel.Model_get_has_particle(self, p)
6587 
6588  def get_particle_indexes(self):
6589  r"""get_particle_indexes(Model self) -> IMP::ParticleIndexes"""
6590  return _IMP_kernel.Model_get_particle_indexes(self)
6591 
6592  def get_model_objects(self):
6593  r"""get_model_objects(Model self) -> IMP::ModelObjectsTemp"""
6594  return _IMP_kernel.Model_get_model_objects(self)
6595 
6596  def remove_particle(self, pi):
6597  r"""remove_particle(Model self, ParticleIndex pi)"""
6598  return _IMP_kernel.Model_remove_particle(self, pi)
6599 
6600  def add_data(self, mk, o):
6601  r"""add_data(Model self, ModelKey mk, Object o)"""
6602  return _IMP_kernel.Model_add_data(self, mk, o)
6603 
6604  def get_data(self, mk):
6605  r"""get_data(Model self, ModelKey mk) -> Object"""
6606  return _IMP_kernel.Model_get_data(self, mk)
6607 
6608  def remove_data(self, mk):
6609  r"""remove_data(Model self, ModelKey mk)"""
6610  return _IMP_kernel.Model_remove_data(self, mk)
6611 
6612  def get_has_data(self, mk):
6613  r"""get_has_data(Model self, ModelKey mk) -> bool"""
6614  return _IMP_kernel.Model_get_has_data(self, mk)
6615 
6616  def get_age(self):
6617  r"""get_age(Model self) -> unsigned int"""
6618  return _IMP_kernel.Model_get_age(self)
6619 
6620  def get_trigger_last_updated(self, tk):
6621  r"""get_trigger_last_updated(Model self, TriggerKey tk) -> unsigned int"""
6622  return _IMP_kernel.Model_get_trigger_last_updated(self, tk)
6623 
6624  def set_trigger_updated(self, tk):
6625  r"""set_trigger_updated(Model self, TriggerKey tk)"""
6626  return _IMP_kernel.Model_set_trigger_updated(self, tk)
6627 
6628  def get_dependencies_updated(self):
6629  r"""get_dependencies_updated(Model self) -> unsigned int"""
6630  return _IMP_kernel.Model_get_dependencies_updated(self)
6631 
6632  def get_removed_particles_attributes_age(self):
6633  r"""get_removed_particles_attributes_age(Model self) -> unsigned int"""
6634  return _IMP_kernel.Model_get_removed_particles_attributes_age(self)
6635 
6636  def save_dependencies(self):
6637  r"""save_dependencies(Model self)"""
6638  return _IMP_kernel.Model_save_dependencies(self)
6639 
6640  def restore_dependencies(self):
6641  r"""restore_dependencies(Model self)"""
6642  return _IMP_kernel.Model_restore_dependencies(self)
6643 
6644  def get_particles_size(self):
6645  r"""get_particles_size(Model self) -> unsigned int"""
6646  return _IMP_kernel.Model_get_particles_size(self)
6647 
6648  def get_unique_id(self):
6649  r"""get_unique_id(Model self) -> uint32_t"""
6650  return _IMP_kernel.Model_get_unique_id(self)
6651 
6652  @staticmethod
6653  def get_by_unique_id(id):
6654  r"""get_by_unique_id(uint32_t id) -> Model"""
6655  return _IMP_kernel.Model_get_by_unique_id(id)
6656 
6657  def get_version_info(self):
6658  r"""get_version_info(Model self) -> VersionInfo"""
6659  return _IMP_kernel.Model_get_version_info(self)
6660  __swig_destroy__ = _IMP_kernel.delete_Model
6661  def __del__(self):
6662  r"""__del__(Model self)"""
6663 
6664  _director_objects.cleanup()
6665 
6666 
6667  pass
6668 
6669 
6670  def do_destroy(self):
6671  r"""do_destroy(Model self)"""
6672  return _IMP_kernel.Model_do_destroy(self)
6673 
6674  def __str__(self):
6675  r"""__str__(Model self) -> std::string"""
6676  return _IMP_kernel.Model___str__(self)
6677 
6678  def __repr__(self):
6679  r"""__repr__(Model self) -> std::string"""
6680  return _IMP_kernel.Model___repr__(self)
6681 
6682  @staticmethod
6683  def get_from(o):
6684  return _object_cast_to_Model(o)
6685 
6686 
6687  def _get_as_binary(self):
6688  r"""_get_as_binary(Model self) -> PyObject *"""
6689  return _IMP_kernel.Model__get_as_binary(self)
6690 
6691  def _set_from_binary(self, p):
6692  r"""_set_from_binary(Model self, PyObject * p)"""
6693  return _IMP_kernel.Model__set_from_binary(self, p)
6694 
6695  def __getstate__(self):
6696  p = self._get_as_binary()
6697  if len(self.__dict__) > 1:
6698  d = self.__dict__.copy()
6699  del d['this']
6700  p = (d, p)
6701  return p
6702 
6703  def __setstate__(self, p):
6704  if not hasattr(self, 'this'):
6705  self.__init__()
6706  if isinstance(p, tuple):
6707  d, p = p
6708  self.__dict__.update(d)
6709  return self._set_from_binary(p)
6710 
6711 
6712  def get_ints_numpy(self, k, read_only=False):
6713  """Get the model's attribute array for IntKey k as a NumPy array.
6714  The array is indexed by ParticleIndex; particles that don't have
6715  this attribute will either be off the end of the array or will have
6716  the value INT_MAX.
6717  This is a NumPy view that shares memory with the Model. Thus,
6718  any changes to values in this list will be reflected in the Model.
6719  Also, if the Model attribute array moves in memory (e.g. if particles
6720  or attributes are added) this array will be invalidated, so it is
6721  unsafe to keep it around long term.
6722  If read_only is set True, values in the array cannot be changed.
6723  """
6724  return _get_ints_numpy(self, k, self, read_only)
6725 
6726  def get_numpy(self, k, read_only=False):
6727  """Get the model's attribute array for any type of Key
6728  k as a NumPy array. See Model::get_ints_numpy() for more details."""
6729  _numpy_meth_map = {IntKey: _get_ints_numpy,
6730  FloatKey: _get_floats_numpy,
6731  Vector3DKey: _get_vector3ds_numpy,
6732  Vector3DDerivKey: _get_vector3dderiv_numpy,
6733  Vector4DKey: _get_vector4ds_numpy,
6734  Vector4DDerivKey: _get_vector4dderiv_numpy}
6735  return _numpy_meth_map[type(k)](self, k, self, read_only)
6736 
6737  def get_floats_numpy(self, k, read_only=False):
6738  """Get the model's attribute array for FloatKey k as a NumPy array.
6739  See Model::get_ints_numpy() for more details."""
6740  return _get_floats_numpy(self, k, self, read_only)
6741 
6742  def get_derivatives_numpy(self, k, read_only=False):
6743  """Get the model's attribute derivatives array for key k
6744  as a NumPy array. See Model::get_ints_numpy() for more details."""
6745  _numpy_meth_map = {
6746  FloatKey: _get_derivatives_numpy,
6747  Vector3DDerivKey: _get_vector3dderiv_derivatives_numpy,
6748  Vector4DDerivKey: _get_vector4dderiv_derivatives_numpy}
6749  return _numpy_meth_map[type(k)](self, k, self, read_only)
6750 
6751  def get_vector3ds_numpy(self, k, read_only=False):
6752  """Get the model's attribute array for Vector3DKey k as a NumPy array.
6753  See Model::get_ints_numpy() for more details."""
6754  return _get_vector3ds_numpy(self, k, self, read_only)
6755 
6756  def get_spheres_numpy(self, read_only=False):
6757  """Get the model's XYZR attribute arrays as NumPy arrays.
6758  The attribute arrays for Cartesian coordinates and radii are
6759  stored separately from those for other FloatKeys. This function
6760  returns a tuple of two NumPy arrays, the first of coordinates and
6761  the second of radii. See Model::get_ints_numpy() for more details."""
6762  return _get_spheres_numpy(self, self, read_only)
6763 
6764  def get_sphere_derivatives_numpy(self, read_only=False):
6765  """Get the model's XYZR attribute derivatives arrays as NumPy arrays.
6766  See Model::get_ints_numpy() for more details."""
6767  return _get_sphere_derivatives_numpy(self, self, read_only)
6768 
6769  def get_internal_coordinates_numpy(self, read_only=False):
6770  """Get the model's internal coordinate array as a NumPy array.
6771  The attribute arrays for rigid body internal coordinates are
6772  stored separately from those for other FloatKeys.
6773  See Model::get_ints_numpy() for more details."""
6774  return _get_internal_coordinates_numpy(self, self, read_only)
6775 
6776  def get_internal_coordinate_derivatives_numpy(self, read_only=False):
6777  """Get the model's internal coordinate derivative array as a
6778  NumPy array.
6779  See Model::get_ints_numpy() for more details."""
6780  return _get_internal_coordinate_derivatives_numpy(
6781  self, self, read_only)
6782 
6783 
6784 # Register Model in _IMP_kernel:
6785 _IMP_kernel.Model_swigregister(Model)
6786 class Decorator(_Value):
6787  r"""Proxy of C++ IMP::Decorator class."""
6788 
6789  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
6790  __repr__ = _swig_repr
6791 
6792  def __init__(self, p):
6793  r"""__init__(Decorator self, _ParticleAdaptor p) -> Decorator"""
6794  _IMP_kernel.Decorator_swiginit(self, _IMP_kernel.new_Decorator(p))
6795 
6796  def __ne__(self, o):
6797  r"""__ne__(Decorator self, Object o) -> bool"""
6798  return _IMP_kernel.Decorator___ne__(self, o)
6799 
6800  def __lt__(self, o):
6801  r"""__lt__(Decorator self, Object o) -> bool"""
6802  return _IMP_kernel.Decorator___lt__(self, o)
6803 
6804  def __gt__(self, o):
6805  r"""__gt__(Decorator self, Object o) -> bool"""
6806  return _IMP_kernel.Decorator___gt__(self, o)
6807 
6808  def __ge__(self, o):
6809  r"""__ge__(Decorator self, Object o) -> bool"""
6810  return _IMP_kernel.Decorator___ge__(self, o)
6811 
6812  def __le__(self, o):
6813  r"""__le__(Decorator self, Object o) -> bool"""
6814  return _IMP_kernel.Decorator___le__(self, o)
6815 
6816  def get_particle(self):
6817  r"""get_particle(Decorator self) -> Particle"""
6818  return _IMP_kernel.Decorator_get_particle(self)
6819 
6820  def get_particle_index(self):
6821  r"""get_particle_index(Decorator self) -> ParticleIndex"""
6822  return _IMP_kernel.Decorator_get_particle_index(self)
6823 
6824  def get_model(self):
6825  m = _IMP_kernel.Decorator_get_model(self)
6826  if m in _models_set:
6827  m = _models_set_get(m)
6828  return m
6829 
6830 
6831 
6832  def get_is_valid(self):
6833  r"""get_is_valid(Decorator self) -> bool"""
6834  return _IMP_kernel.Decorator_get_is_valid(self)
6835 
6836  def __hash__(self):
6837  r"""__hash__(Decorator self) -> std::size_t"""
6838  return _IMP_kernel.Decorator___hash__(self)
6839 
6840  def __eq__(self, *args):
6841  r"""
6842  __eq__(Decorator self, Object o) -> bool
6843  __eq__(Decorator self, Decorator o) -> bool
6844  __eq__(Decorator self, Particle o) -> bool
6845  """
6846  return _IMP_kernel.Decorator___eq__(self, *args)
6847 
6848  def __bool__(self):
6849  r"""__bool__(Decorator self) -> bool"""
6850  return _IMP_kernel.Decorator___bool__(self)
6851  __swig_destroy__ = _IMP_kernel.delete_Decorator
6852 
6853 # Register Decorator in _IMP_kernel:
6854 _IMP_kernel.Decorator_swigregister(Decorator)
6855 
6856 def check_particle(m, pi):
6857  r"""check_particle(Model m, ParticleIndex pi)"""
6858  return _IMP_kernel.check_particle(m, pi)
6859 class UnaryFunction(Object):
6860  r"""Proxy of C++ IMP::UnaryFunction class."""
6861 
6862  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
6863 
6864  def __init__(self, *args):
6865  r"""__init__(UnaryFunction self, std::string name="UnaryFunction%1%") -> UnaryFunction"""
6866  if self.__class__ == UnaryFunction:
6867  _self = None
6868  else:
6869  _self = self
6870  _IMP_kernel.UnaryFunction_swiginit(self, _IMP_kernel.new_UnaryFunction(_self, *args))
6871 
6872  if self.__class__ != UnaryFunction:
6873  _director_objects.register(self)
6874 
6875 
6876 
6877 
6878  def evaluate(self, feature):
6879  r"""evaluate(UnaryFunction self, double feature) -> double"""
6880  return _IMP_kernel.UnaryFunction_evaluate(self, feature)
6881 
6882  def evaluate_with_derivative(self, feature):
6883  r"""evaluate_with_derivative(UnaryFunction self, double feature) -> IMP::DerivativePair"""
6884  return _IMP_kernel.UnaryFunction_evaluate_with_derivative(self, feature)
6885  __swig_destroy__ = _IMP_kernel.delete_UnaryFunction
6886 
6887  def __str__(self):
6888  r"""__str__(UnaryFunction self) -> std::string"""
6889  return _IMP_kernel.UnaryFunction___str__(self)
6890 
6891  def __repr__(self):
6892  r"""__repr__(UnaryFunction self) -> std::string"""
6893  return _IMP_kernel.UnaryFunction___repr__(self)
6894 
6895  @staticmethod
6896  def get_from(o):
6897  return _object_cast_to_UnaryFunction(o)
6898 
6899 
6900  def do_show(self, out):
6901  pass
6902 
6903  @staticmethod
6904  def get_from(o):
6905  return _object_cast_to_UnaryFunction(o)
6906 
6907 
6908  def _get_jax(self):
6909  """Return a JAX implementation of this UnaryFunction.
6910  Implement this method in a UnaryFunction subclass to provide
6911  an equivalent function using [JAX](https://docs.jax.dev/)
6912  that scores the provided feature value.
6913  """
6914  raise NotImplementedError(
6915  f"No JAX implementation for {self} ({type(self)})")
6916 
6917  def __disown__(self):
6918  self.this.disown()
6919  _IMP_kernel.disown_UnaryFunction(self)
6920  return weakref.proxy(self)
6921 
6922  def do_destroy(self):
6923  r"""do_destroy(UnaryFunction self)"""
6924  return _IMP_kernel.UnaryFunction_do_destroy(self)
6925 
6926 # Register UnaryFunction in _IMP_kernel:
6927 _IMP_kernel.UnaryFunction_swigregister(UnaryFunction)
6929  r"""Proxy of C++ IMP::OptimizerState class."""
6930 
6931  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
6932 
6933  def __init__(self, *args):
6934  r"""
6935  __init__(OptimizerState self, Model m, std::string name) -> OptimizerState
6936  __init__(OptimizerState self) -> OptimizerState
6937  """
6938  if self.__class__ == OptimizerState:
6939  _self = None
6940  else:
6941  _self = self
6942  _IMP_kernel.OptimizerState_swiginit(self, _IMP_kernel.new_OptimizerState(_self, *args))
6943 
6944  if self.__class__ != OptimizerState:
6945  _director_objects.register(self)
6946 
6947 
6948 
6949 
6950  def update(self):
6951  r"""update(OptimizerState self)"""
6952  return _IMP_kernel.OptimizerState_update(self)
6953 
6954  def set_is_optimizing(self, arg0):
6955  r"""set_is_optimizing(OptimizerState self, bool arg0)"""
6956  return _IMP_kernel.OptimizerState_set_is_optimizing(self, arg0)
6957 
6958  def get_optimizer(self):
6959  r"""get_optimizer(OptimizerState self) -> Optimizer"""
6960  return _IMP_kernel.OptimizerState_get_optimizer(self)
6961 
6962  def set_period(self, p):
6963  r"""set_period(OptimizerState self, unsigned int p)"""
6964  return _IMP_kernel.OptimizerState_set_period(self, p)
6965 
6966  def get_period(self):
6967  r"""get_period(OptimizerState self) -> unsigned int"""
6968  return _IMP_kernel.OptimizerState_get_period(self)
6969 
6970  def reset(self):
6971  r"""reset(OptimizerState self)"""
6972  return _IMP_kernel.OptimizerState_reset(self)
6973 
6974  def update_always(self):
6975  r"""update_always(OptimizerState self)"""
6976  return _IMP_kernel.OptimizerState_update_always(self)
6977 
6978  def get_number_of_updates(self):
6979  r"""get_number_of_updates(OptimizerState self) -> unsigned int"""
6980  return _IMP_kernel.OptimizerState_get_number_of_updates(self)
6981 
6982  def set_number_of_updates(self, n):
6983  r"""set_number_of_updates(OptimizerState self, unsigned int n)"""
6984  return _IMP_kernel.OptimizerState_set_number_of_updates(self, n)
6985  __swig_destroy__ = _IMP_kernel.delete_OptimizerState
6986 
6987  def do_update(self, arg0):
6988  r"""do_update(OptimizerState self, unsigned int arg0)"""
6989  return _IMP_kernel.OptimizerState_do_update(self, arg0)
6990 
6991  def do_set_is_optimizing(self, arg0):
6992  r"""do_set_is_optimizing(OptimizerState self, bool arg0)"""
6993  return _IMP_kernel.OptimizerState_do_set_is_optimizing(self, arg0)
6994 
6995  def do_get_inputs(self):
6996  r"""do_get_inputs(OptimizerState self) -> IMP::ModelObjectsTemp"""
6997  return _IMP_kernel.OptimizerState_do_get_inputs(self)
6998 
6999  def do_get_outputs(self):
7000  r"""do_get_outputs(OptimizerState self) -> IMP::ModelObjectsTemp"""
7001  return _IMP_kernel.OptimizerState_do_get_outputs(self)
7002 
7003  def __str__(self):
7004  r"""__str__(OptimizerState self) -> std::string"""
7005  return _IMP_kernel.OptimizerState___str__(self)
7006 
7007  def __repr__(self):
7008  r"""__repr__(OptimizerState self) -> std::string"""
7009  return _IMP_kernel.OptimizerState___repr__(self)
7010 
7011  @staticmethod
7012  def get_from(o):
7013  return _object_cast_to_OptimizerState(o)
7014 
7015 
7016  def do_show(self, out):
7017  pass
7018 
7019  @staticmethod
7020  def get_from(o):
7021  return _object_cast_to_OptimizerState(o)
7022 
7023 
7024  def _get_jax(self, state_index):
7025  """Add JAX support for this OptimizerState.
7026 
7027  Each OptimizerState must explicitly support how it is going to
7028  be called when the Optimizer is run via JAX.
7029 
7030  OptimizerStates can run as traditional IMP CPU code
7031  on the IMP Model object, in which case None should be returned here.
7032  The Optimizer will sync any necessary information from JAX back
7033  with the IMP Model before calling the OptimizerState. However,
7034  the OptimizerState is not permitted to modify the Model; any
7035  changes will not be propagated back to the Optimizer.
7036  (For example, a thermostat which tries to change particle
7037  velocities will not function correctly.)
7038 
7039  Alternatively, a pure JAX implementation can be provided.
7040  See _wrap_jax for more information.
7041  """
7042  raise NotImplementedError(
7043  f"No JAX implementation for {self} ({type(self)})")
7044 
7045  def _wrap_jax(self, init_func, apply_func):
7046  """Create the return value for _get_jax.
7047  Use this method in _get_jax() to wrap the JAX function
7048  with other OptimizerState-specific information.
7049 
7050  @param init_func a JAX function which, given a JAX Optimizer,
7051  does any necessary setup and returns a (possibly modified)
7052  JAX Optimizer. If any OptimizerState-specific
7053  persistent state is needed, it can be stored in
7054  `opt.optimizer_states[state_index]` and later retrieved or
7055  modified in apply_func.
7056  @param apply_func a JAX function which, given a JAX Optimizer,
7057  does the JAX equivalent of do_update() and returns a new
7058  JAX Optimizer.
7059  """
7060  from IMP._jax_util import JAXOptimizerStateInfo
7061  return JAXOptimizerStateInfo(self, init_func, apply_func)
7062 
7063  def __disown__(self):
7064  self.this.disown()
7065  _IMP_kernel.disown_OptimizerState(self)
7066  return weakref.proxy(self)
7067 
7068  def do_destroy(self):
7069  r"""do_destroy(OptimizerState self)"""
7070  return _IMP_kernel.OptimizerState_do_destroy(self)
7071 
7072  def handle_set_has_required_score_states(self, arg0):
7073  r"""handle_set_has_required_score_states(OptimizerState self, bool arg0)"""
7074  return _IMP_kernel.OptimizerState_handle_set_has_required_score_states(self, arg0)
7075 
7076  def do_get_interactions(self):
7077  r"""do_get_interactions(OptimizerState self) -> IMP::ModelObjectsTemps"""
7078  return _IMP_kernel.OptimizerState_do_get_interactions(self)
7079 
7080 # Register OptimizerState in _IMP_kernel:
7081 _IMP_kernel.OptimizerState_swigregister(OptimizerState)
7082 class Refiner(_ParticleInputs, Object):
7083  r"""Proxy of C++ IMP::Refiner class."""
7084 
7085  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
7086 
7087  def __init__(self, *args):
7088  r"""__init__(Refiner self, std::string name="Refiner %1%", bool is_by_ref=False) -> Refiner"""
7089  if self.__class__ == Refiner:
7090  _self = None
7091  else:
7092  _self = self
7093  _IMP_kernel.Refiner_swiginit(self, _IMP_kernel.new_Refiner(_self, *args))
7094 
7095  if self.__class__ != Refiner:
7096  _director_objects.register(self)
7097 
7098 
7099 
7100 
7101  def get_can_refine(self, arg0):
7102  r"""get_can_refine(Refiner self, Particle arg0) -> bool"""
7103  return _IMP_kernel.Refiner_get_can_refine(self, arg0)
7104 
7105  def get_refined_indexes(self, m, pi):
7106  r"""get_refined_indexes(Refiner self, Model m, ParticleIndex pi) -> IMP::ParticleIndexes"""
7107  return _IMP_kernel.Refiner_get_refined_indexes(self, m, pi)
7108 
7109  def get_refined_indexes_by_ref(self, m, pi):
7110  r"""get_refined_indexes_by_ref(Refiner self, Model m, ParticleIndex pi) -> IMP::ParticleIndexes const &"""
7111  return _IMP_kernel.Refiner_get_refined_indexes_by_ref(self, m, pi)
7112 
7113  def get_is_by_ref_supported(self):
7114  r"""get_is_by_ref_supported(Refiner self) -> bool"""
7115  return _IMP_kernel.Refiner_get_is_by_ref_supported(self)
7116 
7117  def get_refined(self, *args):
7118  r"""
7119  get_refined(Refiner self, Particle a) -> IMP::ParticlesTemp const
7120  get_refined(Refiner self, Particle a, unsigned int i) -> Particle
7121  """
7122  return _IMP_kernel.Refiner_get_refined(self, *args)
7123 
7124  def get_number_of_refined(self, a):
7125  r"""get_number_of_refined(Refiner self, Particle a) -> unsigned int"""
7126  return _IMP_kernel.Refiner_get_number_of_refined(self, a)
7127 
7128  def __str__(self):
7129  r"""__str__(Refiner self) -> std::string"""
7130  return _IMP_kernel.Refiner___str__(self)
7131 
7132  def __repr__(self):
7133  r"""__repr__(Refiner self) -> std::string"""
7134  return _IMP_kernel.Refiner___repr__(self)
7135 
7136  @staticmethod
7137  def get_from(o):
7138  return _object_cast_to_Refiner(o)
7139 
7140 
7141  def do_show(self, out):
7142  pass
7143 
7144  @staticmethod
7145  def get_from(o):
7146  return _object_cast_to_Refiner(o)
7147 
7148  __swig_destroy__ = _IMP_kernel.delete_Refiner
7149  def __disown__(self):
7150  self.this.disown()
7151  _IMP_kernel.disown_Refiner(self)
7152  return weakref.proxy(self)
7153 
7154  def do_get_inputs(self, m, pis):
7155  r"""do_get_inputs(Refiner self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7156  return _IMP_kernel.Refiner_do_get_inputs(self, m, pis)
7157 
7158  def do_destroy(self):
7159  r"""do_destroy(Refiner self)"""
7160  return _IMP_kernel.Refiner_do_destroy(self)
7161 
7162 # Register Refiner in _IMP_kernel:
7163 _IMP_kernel.Refiner_swigregister(Refiner)
7164 class Optimizer(ModelObject):
7165  r"""Proxy of C++ IMP::Optimizer class."""
7166 
7167  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
7168 
7169  def set_is_optimizing_states(self, tf):
7170  r"""set_is_optimizing_states(Optimizer self, bool tf)"""
7171  return _IMP_kernel.Optimizer_set_is_optimizing_states(self, tf)
7172 
7173  def get_optimizer_state_inputs(self):
7174  r"""get_optimizer_state_inputs(Optimizer self) -> IMP::ModelObjectsTemp"""
7175  return _IMP_kernel.Optimizer_get_optimizer_state_inputs(self)
7176 
7177  def do_get_inputs(self):
7178  r"""do_get_inputs(Optimizer self) -> IMP::ModelObjectsTemp"""
7179  return _IMP_kernel.Optimizer_do_get_inputs(self)
7180 
7181  def do_get_outputs(self):
7182  r"""do_get_outputs(Optimizer self) -> IMP::ModelObjectsTemp"""
7183  return _IMP_kernel.Optimizer_do_get_outputs(self)
7184 
7185  def __init__(self, *args):
7186  r"""
7187  __init__(Optimizer self, Model m, std::string name="Optimizer %1%") -> Optimizer
7188  __init__(Optimizer self) -> Optimizer
7189  """
7190  if self.__class__ == Optimizer:
7191  _self = None
7192  else:
7193  _self = self
7194  _IMP_kernel.Optimizer_swiginit(self, _IMP_kernel.new_Optimizer(_self, *args))
7195 
7196  if self.__class__ != Optimizer:
7197  _director_objects.register(self)
7198 
7199 
7200 
7201 
7202  def optimize(self, max_steps):
7203  r"""optimize(Optimizer self, unsigned int max_steps) -> double"""
7204  return _IMP_kernel.Optimizer_optimize(self, max_steps)
7205 
7206  def set_stop_on_good_score(self, tf):
7207  r"""set_stop_on_good_score(Optimizer self, bool tf)"""
7208  return _IMP_kernel.Optimizer_set_stop_on_good_score(self, tf)
7209 
7210  def get_stop_on_good_score(self):
7211  r"""get_stop_on_good_score(Optimizer self) -> bool"""
7212  return _IMP_kernel.Optimizer_get_stop_on_good_score(self)
7213 
7214  def get_last_score(self):
7215  r"""get_last_score(Optimizer self) -> double"""
7216  return _IMP_kernel.Optimizer_get_last_score(self)
7217 
7218  def get_scoring_function(self):
7219  r"""get_scoring_function(Optimizer self) -> ScoringFunction"""
7220  return _IMP_kernel.Optimizer_get_scoring_function(self)
7221  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)
7222  def __set_optimizer_states(self, obj): _list_util.set_varlist(self.optimizer_states, obj)
7223  def __del_optimizer_states(self): _list_util.del_varlist(self.optimizer_states)
7224  optimizer_states = property(__get_optimizer_states, __set_optimizer_states, __del_optimizer_states, doc="List of ##ucnames")
7225 
7226  def remove_optimizer_state(self, d):
7227  r"""remove_optimizer_state(Optimizer self, OptimizerState d)"""
7228  return _IMP_kernel.Optimizer_remove_optimizer_state(self, d)
7229 
7230  def _python_index_optimizer_state(self, d, start, stop):
7231  r"""_python_index_optimizer_state(Optimizer self, OptimizerState d, unsigned int start, unsigned int stop) -> unsigned int"""
7232  return _IMP_kernel.Optimizer__python_index_optimizer_state(self, d, start, stop)
7233 
7234  def remove_optimizer_states(self, d):
7235  r"""remove_optimizer_states(Optimizer self, IMP::OptimizerStates const & d)"""
7236  return _IMP_kernel.Optimizer_remove_optimizer_states(self, d)
7237 
7238  def set_optimizer_states(self, ps):
7239  r"""set_optimizer_states(Optimizer self, IMP::OptimizerStates const & ps)"""
7240  return _IMP_kernel.Optimizer_set_optimizer_states(self, ps)
7241 
7242  def set_optimizer_states_order(self, objs):
7243  r"""set_optimizer_states_order(Optimizer self, IMP::OptimizerStates const & objs)"""
7244  return _IMP_kernel.Optimizer_set_optimizer_states_order(self, objs)
7245 
7246  def add_optimizer_state(self, obj):
7247  r"""add_optimizer_state(Optimizer self, OptimizerState obj) -> unsigned int"""
7248  return _IMP_kernel.Optimizer_add_optimizer_state(self, obj)
7249 
7250  def add_optimizer_states(self, objs):
7251  r"""add_optimizer_states(Optimizer self, IMP::OptimizerStates const & objs)"""
7252  return _IMP_kernel.Optimizer_add_optimizer_states(self, objs)
7253 
7254  def clear_optimizer_states(self):
7255  r"""clear_optimizer_states(Optimizer self)"""
7256  return _IMP_kernel.Optimizer_clear_optimizer_states(self)
7257 
7258  def get_number_of_optimizer_states(self):
7259  r"""get_number_of_optimizer_states(Optimizer self) -> unsigned int"""
7260  return _IMP_kernel.Optimizer_get_number_of_optimizer_states(self)
7261 
7262  def get_has_optimizer_states(self):
7263  r"""get_has_optimizer_states(Optimizer self) -> bool"""
7264  return _IMP_kernel.Optimizer_get_has_optimizer_states(self)
7265 
7266  def get_optimizer_state(self, i):
7267  r"""get_optimizer_state(Optimizer self, unsigned int i) -> OptimizerState"""
7268  return _IMP_kernel.Optimizer_get_optimizer_state(self, i)
7269 
7270  def get_optimizer_states(self):
7271  r"""get_optimizer_states(Optimizer self) -> IMP::OptimizerStates"""
7272  return _IMP_kernel.Optimizer_get_optimizer_states(self)
7273 
7274  def erase_optimizer_state(self, i):
7275  r"""erase_optimizer_state(Optimizer self, unsigned int i)"""
7276  return _IMP_kernel.Optimizer_erase_optimizer_state(self, i)
7277 
7278  def reserve_optimizer_states(self, sz):
7279  r"""reserve_optimizer_states(Optimizer self, unsigned int sz)"""
7280  return _IMP_kernel.Optimizer_reserve_optimizer_states(self, sz)
7281 
7282  def set_scoring_function(self, sf):
7283  r"""set_scoring_function(Optimizer self, _ScoringFunctionAdaptor sf)"""
7284  return _IMP_kernel.Optimizer_set_scoring_function(self, sf)
7285  __swig_destroy__ = _IMP_kernel.delete_Optimizer
7286  def __del__(self):
7287  r"""__del__(Optimizer self)"""
7288 
7289  _director_objects.cleanup()
7290 
7291 
7292  pass
7293 
7294 
7295  def do_optimize(self, ns):
7296  r"""do_optimize(Optimizer self, unsigned int ns) -> double"""
7297  return _IMP_kernel.Optimizer_do_optimize(self, ns)
7298 
7299  def update_states(self):
7300  r"""update_states(Optimizer self)"""
7301  return _IMP_kernel.Optimizer_update_states(self)
7302 
7303  def __str__(self):
7304  r"""__str__(Optimizer self) -> std::string"""
7305  return _IMP_kernel.Optimizer___str__(self)
7306 
7307  def __repr__(self):
7308  r"""__repr__(Optimizer self) -> std::string"""
7309  return _IMP_kernel.Optimizer___repr__(self)
7310 
7311  @staticmethod
7312  def get_from(o):
7313  return _object_cast_to_Optimizer(o)
7314 
7315 
7316  def do_show(self, out):
7317  pass
7318 
7319  @staticmethod
7320  def get_from(o):
7321  return _object_cast_to_Optimizer(o)
7322 
7323  def __disown__(self):
7324  self.this.disown()
7325  _IMP_kernel.disown_Optimizer(self)
7326  return weakref.proxy(self)
7327 
7328  def do_destroy(self):
7329  r"""do_destroy(Optimizer self)"""
7330  return _IMP_kernel.Optimizer_do_destroy(self)
7331 
7332  def handle_set_has_required_score_states(self, arg0):
7333  r"""handle_set_has_required_score_states(Optimizer self, bool arg0)"""
7334  return _IMP_kernel.Optimizer_handle_set_has_required_score_states(self, arg0)
7335 
7336  def do_get_interactions(self):
7337  r"""do_get_interactions(Optimizer self) -> IMP::ModelObjectsTemps"""
7338  return _IMP_kernel.Optimizer_do_get_interactions(self)
7339 
7340 # Register Optimizer in _IMP_kernel:
7341 _IMP_kernel.Optimizer_swigregister(Optimizer)
7343  r"""Proxy of C++ IMP::AttributeOptimizer class."""
7344 
7345  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
7346 
7347  def __init__(self, *args):
7348  r"""
7349  __init__(AttributeOptimizer self, Model m, std::string name="Optimizer %1%") -> AttributeOptimizer
7350  __init__(AttributeOptimizer self) -> AttributeOptimizer
7351  """
7352  if self.__class__ == AttributeOptimizer:
7353  _self = None
7354  else:
7355  _self = self
7356  _IMP_kernel.AttributeOptimizer_swiginit(self, _IMP_kernel.new_AttributeOptimizer(_self, *args))
7357 
7358  if self.__class__ != AttributeOptimizer:
7359  _director_objects.register(self)
7360 
7361 
7362 
7363 
7364  def get_optimized_attributes(self):
7365  r"""get_optimized_attributes(AttributeOptimizer self) -> IMP::FloatIndexes"""
7366  return _IMP_kernel.AttributeOptimizer_get_optimized_attributes(self)
7367 
7368  def set_value(self, fi, v):
7369  r"""set_value(AttributeOptimizer self, FloatIndex fi, double v)"""
7370  return _IMP_kernel.AttributeOptimizer_set_value(self, fi, v)
7371 
7372  def get_value(self, fi):
7373  r"""get_value(AttributeOptimizer self, FloatIndex fi) -> IMP::Float"""
7374  return _IMP_kernel.AttributeOptimizer_get_value(self, fi)
7375 
7376  def get_derivative(self, fi):
7377  r"""get_derivative(AttributeOptimizer self, FloatIndex fi) -> IMP::Float"""
7378  return _IMP_kernel.AttributeOptimizer_get_derivative(self, fi)
7379 
7380  def get_width(self, k):
7381  r"""get_width(AttributeOptimizer self, FloatKey k) -> double"""
7382  return _IMP_kernel.AttributeOptimizer_get_width(self, k)
7383 
7384  def set_scaled_value(self, fi, v):
7385  r"""set_scaled_value(AttributeOptimizer self, FloatIndex fi, IMP::Float v)"""
7386  return _IMP_kernel.AttributeOptimizer_set_scaled_value(self, fi, v)
7387 
7388  def get_scaled_value(self, fi):
7389  r"""get_scaled_value(AttributeOptimizer self, FloatIndex fi) -> double"""
7390  return _IMP_kernel.AttributeOptimizer_get_scaled_value(self, fi)
7391 
7392  def get_scaled_derivative(self, fi):
7393  r"""get_scaled_derivative(AttributeOptimizer self, FloatIndex fi) -> double"""
7394  return _IMP_kernel.AttributeOptimizer_get_scaled_derivative(self, fi)
7395 
7396  def clear_range_cache(self):
7397  r"""clear_range_cache(AttributeOptimizer self)"""
7398  return _IMP_kernel.AttributeOptimizer_clear_range_cache(self)
7399 
7400  def __str__(self):
7401  r"""__str__(AttributeOptimizer self) -> std::string"""
7402  return _IMP_kernel.AttributeOptimizer___str__(self)
7403 
7404  def __repr__(self):
7405  r"""__repr__(AttributeOptimizer self) -> std::string"""
7406  return _IMP_kernel.AttributeOptimizer___repr__(self)
7407 
7408  @staticmethod
7409  def get_from(o):
7410  return _object_cast_to_AttributeOptimizer(o)
7411 
7412 
7413  def do_show(self, out):
7414  pass
7415 
7416  @staticmethod
7417  def get_from(o):
7418  return _object_cast_to_AttributeOptimizer(o)
7419 
7420  __swig_destroy__ = _IMP_kernel.delete_AttributeOptimizer
7421  def __disown__(self):
7422  self.this.disown()
7423  _IMP_kernel.disown_AttributeOptimizer(self)
7424  return weakref.proxy(self)
7425 
7426  def do_destroy(self):
7427  r"""do_destroy(AttributeOptimizer self)"""
7428  return _IMP_kernel.AttributeOptimizer_do_destroy(self)
7429 
7430  def handle_set_has_required_score_states(self, arg0):
7431  r"""handle_set_has_required_score_states(AttributeOptimizer self, bool arg0)"""
7432  return _IMP_kernel.AttributeOptimizer_handle_set_has_required_score_states(self, arg0)
7433 
7434  def do_get_inputs(self):
7435  r"""do_get_inputs(AttributeOptimizer self) -> IMP::ModelObjectsTemp"""
7436  return _IMP_kernel.AttributeOptimizer_do_get_inputs(self)
7437 
7438  def do_get_outputs(self):
7439  r"""do_get_outputs(AttributeOptimizer self) -> IMP::ModelObjectsTemp"""
7440  return _IMP_kernel.AttributeOptimizer_do_get_outputs(self)
7441 
7442  def do_get_interactions(self):
7443  r"""do_get_interactions(AttributeOptimizer self) -> IMP::ModelObjectsTemps"""
7444  return _IMP_kernel.AttributeOptimizer_do_get_interactions(self)
7445 
7446  def do_optimize(self, ns):
7447  r"""do_optimize(AttributeOptimizer self, unsigned int ns) -> double"""
7448  return _IMP_kernel.AttributeOptimizer_do_optimize(self, ns)
7449 
7450 # Register AttributeOptimizer in _IMP_kernel:
7451 _IMP_kernel.AttributeOptimizer_swigregister(AttributeOptimizer)
7452 class ConfigurationSet(Object):
7453  r"""Proxy of C++ IMP::ConfigurationSet class."""
7454 
7455  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
7456 
7457  def __init__(self, *args):
7458  r"""__init__(ConfigurationSet self, Model m, std::string name="ConfigurationSet %1%") -> ConfigurationSet"""
7459  _IMP_kernel.ConfigurationSet_swiginit(self, _IMP_kernel.new_ConfigurationSet(*args))
7460 
7461  def save_configuration(self):
7462  r"""save_configuration(ConfigurationSet self)"""
7463  return _IMP_kernel.ConfigurationSet_save_configuration(self)
7464 
7465  def get_number_of_configurations(self):
7466  r"""get_number_of_configurations(ConfigurationSet self) -> unsigned int"""
7467  return _IMP_kernel.ConfigurationSet_get_number_of_configurations(self)
7468 
7469  def load_configuration(self, i):
7470  r"""load_configuration(ConfigurationSet self, int i)"""
7471  return _IMP_kernel.ConfigurationSet_load_configuration(self, i)
7472 
7473  def remove_configuration(self, i):
7474  r"""remove_configuration(ConfigurationSet self, unsigned int i)"""
7475  return _IMP_kernel.ConfigurationSet_remove_configuration(self, i)
7476 
7477  def get_model(self):
7478  r"""get_model(ConfigurationSet self) -> Model"""
7479  return _IMP_kernel.ConfigurationSet_get_model(self)
7480 
7481  def get_version_info(self):
7482  r"""get_version_info(ConfigurationSet self) -> VersionInfo"""
7483  return _IMP_kernel.ConfigurationSet_get_version_info(self)
7484  __swig_destroy__ = _IMP_kernel.delete_ConfigurationSet
7485 
7486  def __str__(self):
7487  r"""__str__(ConfigurationSet self) -> std::string"""
7488  return _IMP_kernel.ConfigurationSet___str__(self)
7489 
7490  def __repr__(self):
7491  r"""__repr__(ConfigurationSet self) -> std::string"""
7492  return _IMP_kernel.ConfigurationSet___repr__(self)
7493 
7494  @staticmethod
7495  def get_from(o):
7496  return _object_cast_to_ConfigurationSet(o)
7497 
7498 
7499 # Register ConfigurationSet in _IMP_kernel:
7500 _IMP_kernel.ConfigurationSet_swigregister(ConfigurationSet)
7502  r"""Proxy of C++ IMP::SaveToConfigurationSetOptimizerState class."""
7503 
7504  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
7505 
7506  def __init__(self, cs):
7507  r"""__init__(SaveToConfigurationSetOptimizerState self, ConfigurationSet cs) -> SaveToConfigurationSetOptimizerState"""
7508  _IMP_kernel.SaveToConfigurationSetOptimizerState_swiginit(self, _IMP_kernel.new_SaveToConfigurationSetOptimizerState(cs))
7509 
7510  def get_version_info(self):
7511  r"""get_version_info(SaveToConfigurationSetOptimizerState self) -> VersionInfo"""
7512  return _IMP_kernel.SaveToConfigurationSetOptimizerState_get_version_info(self)
7513  __swig_destroy__ = _IMP_kernel.delete_SaveToConfigurationSetOptimizerState
7514 
7515  def __str__(self):
7516  r"""__str__(SaveToConfigurationSetOptimizerState self) -> std::string"""
7517  return _IMP_kernel.SaveToConfigurationSetOptimizerState___str__(self)
7518 
7519  def __repr__(self):
7520  r"""__repr__(SaveToConfigurationSetOptimizerState self) -> std::string"""
7521  return _IMP_kernel.SaveToConfigurationSetOptimizerState___repr__(self)
7522 
7523  @staticmethod
7524  def get_from(o):
7525  return _object_cast_to_SaveToConfigurationSetOptimizerState(o)
7526 
7527 
7528 # Register SaveToConfigurationSetOptimizerState in _IMP_kernel:
7529 _IMP_kernel.SaveToConfigurationSetOptimizerState_swigregister(SaveToConfigurationSetOptimizerState)
7530 class Configuration(Object):
7531  r"""Proxy of C++ IMP::Configuration class."""
7532 
7533  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
7534 
7535  def __init__(self, *args):
7536  r"""
7537  __init__(Configuration self, Model m, std::string name="Configuration %1%") -> Configuration
7538  __init__(Configuration self, Model m, Configuration base, std::string name="Configuration %1%") -> Configuration
7539  """
7540  _IMP_kernel.Configuration_swiginit(self, _IMP_kernel.new_Configuration(*args))
7541 
7542  def load_configuration(self):
7543  r"""load_configuration(Configuration self)"""
7544  return _IMP_kernel.Configuration_load_configuration(self)
7545 
7546  def swap_configuration(self):
7547  r"""swap_configuration(Configuration self)"""
7548  return _IMP_kernel.Configuration_swap_configuration(self)
7549 
7550  def get_version_info(self):
7551  r"""get_version_info(Configuration self) -> VersionInfo"""
7552  return _IMP_kernel.Configuration_get_version_info(self)
7553  __swig_destroy__ = _IMP_kernel.delete_Configuration
7554 
7555  def __str__(self):
7556  r"""__str__(Configuration self) -> std::string"""
7557  return _IMP_kernel.Configuration___str__(self)
7558 
7559  def __repr__(self):
7560  r"""__repr__(Configuration self) -> std::string"""
7561  return _IMP_kernel.Configuration___repr__(self)
7562 
7563  @staticmethod
7564  def get_from(o):
7565  return _object_cast_to_Configuration(o)
7566 
7567 
7568 # Register Configuration in _IMP_kernel:
7569 _IMP_kernel.Configuration_swigregister(Configuration)
7570 class Sampler(Object):
7571  r"""Proxy of C++ IMP::Sampler class."""
7572 
7573  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
7574 
7575  def __init__(self, *args):
7576  r"""__init__(Sampler self, Model m, std::string name="Sampler %1%") -> Sampler"""
7577  if self.__class__ == Sampler:
7578  _self = None
7579  else:
7580  _self = self
7581  _IMP_kernel.Sampler_swiginit(self, _IMP_kernel.new_Sampler(_self, *args))
7582 
7583  if self.__class__ != Sampler:
7584  _director_objects.register(self)
7585 
7586 
7587 
7588 
7589  def create_sample(self):
7590  r"""create_sample(Sampler self) -> ConfigurationSet"""
7591  return _IMP_kernel.Sampler_create_sample(self)
7592 
7593  def get_scoring_function(self):
7594  r"""get_scoring_function(Sampler self) -> ScoringFunction"""
7595  return _IMP_kernel.Sampler_get_scoring_function(self)
7596 
7597  def set_scoring_function(self, sf):
7598  r"""set_scoring_function(Sampler self, _ScoringFunctionAdaptor sf)"""
7599  return _IMP_kernel.Sampler_set_scoring_function(self, sf)
7600 
7601  def get_model(self):
7602  r"""get_model(Sampler self) -> Model"""
7603  return _IMP_kernel.Sampler_get_model(self)
7604 
7605  def do_sample(self):
7606  r"""do_sample(Sampler self) -> ConfigurationSet"""
7607  return _IMP_kernel.Sampler_do_sample(self)
7608  __swig_destroy__ = _IMP_kernel.delete_Sampler
7609 
7610  def __str__(self):
7611  r"""__str__(Sampler self) -> std::string"""
7612  return _IMP_kernel.Sampler___str__(self)
7613 
7614  def __repr__(self):
7615  r"""__repr__(Sampler self) -> std::string"""
7616  return _IMP_kernel.Sampler___repr__(self)
7617 
7618  @staticmethod
7619  def get_from(o):
7620  return _object_cast_to_Sampler(o)
7621 
7622 
7623  def do_show(self, out):
7624  pass
7625 
7626  @staticmethod
7627  def get_from(o):
7628  return _object_cast_to_Sampler(o)
7629 
7630  def __disown__(self):
7631  self.this.disown()
7632  _IMP_kernel.disown_Sampler(self)
7633  return weakref.proxy(self)
7634 
7635  def do_destroy(self):
7636  r"""do_destroy(Sampler self)"""
7637  return _IMP_kernel.Sampler_do_destroy(self)
7638 
7639 # Register Sampler in _IMP_kernel:
7640 _IMP_kernel.Sampler_swigregister(Sampler)
7641 class PairModifier(_ParticleInputs, _ParticleOutputs, Object):
7642  r"""Proxy of C++ IMP::PairModifier class."""
7643 
7644  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
7645 
7646  def __init__(self, *args):
7647  r"""__init__(PairModifier self, std::string name="PairModifier %1%") -> PairModifier"""
7648  if self.__class__ == PairModifier:
7649  _self = None
7650  else:
7651  _self = self
7652  _IMP_kernel.PairModifier_swiginit(self, _IMP_kernel.new_PairModifier(_self, *args))
7653 
7654  if self.__class__ != PairModifier:
7655  _director_objects.register(self)
7656 
7657 
7658 
7659 
7660  def apply_index(self, m, v):
7661  r"""apply_index(PairModifier self, Model m, IMP::ParticleIndexPair const & v)"""
7662  return _IMP_kernel.PairModifier_apply_index(self, m, v)
7663 
7664  def apply_indexes(self, m, o, lower_bound, upper_bound):
7665  r"""apply_indexes(PairModifier self, Model m, IMP::ParticleIndexPairs const & o, unsigned int lower_bound, unsigned int upper_bound)"""
7666  return _IMP_kernel.PairModifier_apply_indexes(self, m, o, lower_bound, upper_bound)
7667 
7668  def apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis):
7669  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)"""
7670  return _IMP_kernel.PairModifier_apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis)
7671 
7672  def __str__(self):
7673  r"""__str__(PairModifier self) -> std::string"""
7674  return _IMP_kernel.PairModifier___str__(self)
7675 
7676  def __repr__(self):
7677  r"""__repr__(PairModifier self) -> std::string"""
7678  return _IMP_kernel.PairModifier___repr__(self)
7679 
7680  @staticmethod
7681  def get_from(o):
7682  return _object_cast_to_PairModifier(o)
7683 
7684 
7685  def do_show(self, out):
7686  pass
7687 
7688  @staticmethod
7689  def get_from(o):
7690  return _object_cast_to_PairModifier(o)
7691 
7692  __swig_destroy__ = _IMP_kernel.delete_PairModifier
7693  def __disown__(self):
7694  self.this.disown()
7695  _IMP_kernel.disown_PairModifier(self)
7696  return weakref.proxy(self)
7697 
7698  def do_get_inputs(self, m, pis):
7699  r"""do_get_inputs(PairModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7700  return _IMP_kernel.PairModifier_do_get_inputs(self, m, pis)
7701 
7702  def do_get_outputs(self, m, pis):
7703  r"""do_get_outputs(PairModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7704  return _IMP_kernel.PairModifier_do_get_outputs(self, m, pis)
7705 
7706  def do_destroy(self):
7707  r"""do_destroy(PairModifier self)"""
7708  return _IMP_kernel.PairModifier_do_destroy(self)
7709 
7710 # Register PairModifier in _IMP_kernel:
7711 _IMP_kernel.PairModifier_swigregister(PairModifier)
7712 class PairScore(_ParticleInputs, Object):
7713  r"""Proxy of C++ IMP::PairScore class."""
7714 
7715  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
7716 
7717  def __init__(self, *args):
7718  r"""__init__(PairScore self, std::string name="PairScore %1%") -> PairScore"""
7719  if self.__class__ == PairScore:
7720  _self = None
7721  else:
7722  _self = self
7723  _IMP_kernel.PairScore_swiginit(self, _IMP_kernel.new_PairScore(_self, *args))
7724 
7725  if self.__class__ != PairScore:
7726  _director_objects.register(self)
7727 
7728 
7729 
7730 
7731  def evaluate_index(self, m, vt, da):
7732  r"""evaluate_index(PairScore self, Model m, IMP::ParticleIndexPair const & vt, DerivativeAccumulator da) -> double"""
7733  return _IMP_kernel.PairScore_evaluate_index(self, m, vt, da)
7734 
7735  def check_indexes(self, m, pis):
7736  r"""check_indexes(PairScore self, Model m, IMP::ParticleIndexes const & pis) -> bool"""
7737  return _IMP_kernel.PairScore_check_indexes(self, m, pis)
7738 
7739  def evaluate_indexes(self, m, o, da, lower_bound, upper_bound, all_indexes_checked=False):
7740  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"""
7741  return _IMP_kernel.PairScore_evaluate_indexes(self, m, o, da, lower_bound, upper_bound, all_indexes_checked)
7742 
7743  def evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score, all_indexes_checked=False):
7744  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"""
7745  return _IMP_kernel.PairScore_evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score, all_indexes_checked)
7746 
7747  def evaluate_indexes_delta(self, m, o, da, indexes, score, all_indexes_checked=False):
7748  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"""
7749  return _IMP_kernel.PairScore_evaluate_indexes_delta(self, m, o, da, indexes, score, all_indexes_checked)
7750 
7751  def evaluate_if_good_index(self, m, vt, da, max):
7752  r"""evaluate_if_good_index(PairScore self, Model m, IMP::ParticleIndexPair const & vt, DerivativeAccumulator da, double max) -> double"""
7753  return _IMP_kernel.PairScore_evaluate_if_good_index(self, m, vt, da, max)
7754 
7755  def evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound, all_indexes_checked=False):
7756  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"""
7757  return _IMP_kernel.PairScore_evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound, all_indexes_checked)
7758 
7759  def create_current_decomposition(self, m, vt):
7760  r"""create_current_decomposition(PairScore self, Model m, IMP::ParticleIndexPair const & vt) -> IMP::Restraints"""
7761  return _IMP_kernel.PairScore_create_current_decomposition(self, m, vt)
7762 
7763  def do_create_current_decomposition(self, m, vt):
7764  r"""do_create_current_decomposition(PairScore self, Model m, IMP::ParticleIndexPair const & vt) -> IMP::Restraints"""
7765  return _IMP_kernel.PairScore_do_create_current_decomposition(self, m, vt)
7766  __swig_destroy__ = _IMP_kernel.delete_PairScore
7767 
7768  def __str__(self):
7769  r"""__str__(PairScore self) -> std::string"""
7770  return _IMP_kernel.PairScore___str__(self)
7771 
7772  def __repr__(self):
7773  r"""__repr__(PairScore self) -> std::string"""
7774  return _IMP_kernel.PairScore___repr__(self)
7775 
7776  @staticmethod
7777  def get_from(o):
7778  return _object_cast_to_PairScore(o)
7779 
7780 
7781  def do_show(self, out):
7782  pass
7783 
7784  @staticmethod
7785  def get_from(o):
7786  return _object_cast_to_PairScore(o)
7787 
7788 
7789  def _wrap_jax(self, m, score_func, keys=None):
7790  """Create the return value for _get_jax.
7791  Use this method in _get_jax() to wrap the JAX scoring function
7792  with other score-specific information.
7793 
7794  @param m The IMP.Model that the score will act on.
7795  @param score_func A function implemented using JAX that takes
7796  one argument (the current JAX Model) and returns the total
7797  score.
7798  @param keys Model attributes used by the PairScore.
7799  See IMP::Restraint::_wrap_jax.
7800  """
7801  from IMP._jax_util import JAXScoreInfo
7802  return JAXScoreInfo(m, score_func=score_func, keys=keys)
7803 
7804  def _get_jax(self, m, indexes):
7805  """Return a JAX implementation of this PairScore.
7806  Implement this method in a PairScore subclass to provide
7807  an equivalent function using [JAX](https://docs.jax.dev/)
7808  that scores the current JAX Model with a given set of
7809  ParticlePairIndexes. See also _wrap_jax.
7810 
7811  @param m The IMP.Model that the score will act on.
7812  @param indexes The ParticlePairIndexes that the score will act on.
7813  """
7814  raise NotImplementedError(
7815  f"No JAX implementation for {self} ({type(self)})")
7816 
7817  def __disown__(self):
7818  self.this.disown()
7819  _IMP_kernel.disown_PairScore(self)
7820  return weakref.proxy(self)
7821 
7822  def do_get_inputs(self, m, pis):
7823  r"""do_get_inputs(PairScore self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7824  return _IMP_kernel.PairScore_do_get_inputs(self, m, pis)
7825 
7826  def do_destroy(self):
7827  r"""do_destroy(PairScore self)"""
7828  return _IMP_kernel.PairScore_do_destroy(self)
7829 
7830 # Register PairScore in _IMP_kernel:
7831 _IMP_kernel.PairScore_swigregister(PairScore)
7832 class PairPredicate(_ParticleInputs, Object):
7833  r"""Proxy of C++ IMP::PairPredicate class."""
7834 
7835  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
7836 
7837  def __init__(self, *args):
7838  r"""__init__(PairPredicate self, std::string name="PairPredicate %1%") -> PairPredicate"""
7839  if self.__class__ == PairPredicate:
7840  _self = None
7841  else:
7842  _self = self
7843  _IMP_kernel.PairPredicate_swiginit(self, _IMP_kernel.new_PairPredicate(_self, *args))
7844 
7845  if self.__class__ != PairPredicate:
7846  _director_objects.register(self)
7847 
7848 
7849 
7850 
7851  def setup_for_get_value_index_in_batch(self, arg0):
7852  r"""setup_for_get_value_index_in_batch(PairPredicate self, Model arg0)"""
7853  return _IMP_kernel.PairPredicate_setup_for_get_value_index_in_batch(self, arg0)
7854 
7855  def get_value_index_in_batch(self, m, vt):
7856  r"""get_value_index_in_batch(PairPredicate self, Model m, IMP::ParticleIndexPair const & vt) -> int"""
7857  return _IMP_kernel.PairPredicate_get_value_index_in_batch(self, m, vt)
7858 
7859  def __call__(self, m, vt):
7860  r"""__call__(PairPredicate self, Model m, IMP::ParticleIndexPair const & vt) -> int"""
7861  return _IMP_kernel.PairPredicate___call__(self, m, vt)
7862 
7863  def get_value_index(self, *args):
7864  r"""
7865  get_value_index(PairPredicate self, Model m, IMP::ParticleIndexPair const & vt) -> int
7866  get_value_index(PairPredicate self, Model m, IMP::ParticleIndexPairs const & o) -> IMP::Ints
7867  """
7868  return _IMP_kernel.PairPredicate_get_value_index(self, *args)
7869  __swig_destroy__ = _IMP_kernel.delete_PairPredicate
7870 
7871  def __str__(self):
7872  r"""__str__(PairPredicate self) -> std::string"""
7873  return _IMP_kernel.PairPredicate___str__(self)
7874 
7875  def __repr__(self):
7876  r"""__repr__(PairPredicate self) -> std::string"""
7877  return _IMP_kernel.PairPredicate___repr__(self)
7878 
7879  @staticmethod
7880  def get_from(o):
7881  return _object_cast_to_PairPredicate(o)
7882 
7883 
7884  def do_show(self, out):
7885  pass
7886 
7887  @staticmethod
7888  def get_from(o):
7889  return _object_cast_to_PairPredicate(o)
7890 
7891  def __disown__(self):
7892  self.this.disown()
7893  _IMP_kernel.disown_PairPredicate(self)
7894  return weakref.proxy(self)
7895 
7896  def do_get_inputs(self, m, pis):
7897  r"""do_get_inputs(PairPredicate self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7898  return _IMP_kernel.PairPredicate_do_get_inputs(self, m, pis)
7899 
7900  def do_destroy(self):
7901  r"""do_destroy(PairPredicate self)"""
7902  return _IMP_kernel.PairPredicate_do_destroy(self)
7903 
7904 # Register PairPredicate in _IMP_kernel:
7905 _IMP_kernel.PairPredicate_swigregister(PairPredicate)
7906 class PairContainer(Container):
7907  r"""Proxy of C++ IMP::PairContainer class."""
7908 
7909  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
7910 
7911  def apply_generic(self, m):
7912  r"""apply_generic(PairContainer self, PairModifier m)"""
7913  return _IMP_kernel.PairContainer_apply_generic(self, m)
7914 
7915  def apply_generic_moved(self, m, moved_pis, reset_pis):
7916  r"""apply_generic_moved(PairContainer self, PairModifier m, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7917  return _IMP_kernel.PairContainer_apply_generic_moved(self, m, moved_pis, reset_pis)
7918 
7919  def apply(self, sm):
7920  r"""apply(PairContainer self, PairModifier sm)"""
7921  return _IMP_kernel.PairContainer_apply(self, sm)
7922 
7923  def apply_moved(self, sm, moved_pis, reset_pis):
7924  r"""apply_moved(PairContainer self, PairModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7925  return _IMP_kernel.PairContainer_apply_moved(self, sm, moved_pis, reset_pis)
7926 
7927  def get_range_indexes(self):
7928  r"""get_range_indexes(PairContainer self) -> IMP::ParticleIndexPairs"""
7929  return _IMP_kernel.PairContainer_get_range_indexes(self)
7930 
7931  def get_contents(self):
7932  r"""get_contents(PairContainer self) -> IMP::ParticleIndexPairs const &"""
7933  return _IMP_kernel.PairContainer_get_contents(self)
7934 
7935  def get_indexes(self):
7936  r"""get_indexes(PairContainer self) -> IMP::ParticleIndexPairs"""
7937  return _IMP_kernel.PairContainer_get_indexes(self)
7938 
7939  def get(self, *args):
7940  r"""
7941  get(PairContainer self) -> IMP::ParticlePairsTemp
7942  get(PairContainer self, unsigned int i) -> IMP::ParticlePair
7943  """
7944  return _IMP_kernel.PairContainer_get(self, *args)
7945 
7946  def get_number(self):
7947  r"""get_number(PairContainer self) -> unsigned int"""
7948  return _IMP_kernel.PairContainer_get_number(self)
7949 
7950  def __init__(self, *args):
7951  r"""
7952  __init__(PairContainer self, Model m, std::string name="PairContainer %1%") -> PairContainer
7953  __init__(PairContainer self) -> PairContainer
7954  """
7955  if self.__class__ == PairContainer:
7956  _self = None
7957  else:
7958  _self = self
7959  _IMP_kernel.PairContainer_swiginit(self, _IMP_kernel.new_PairContainer(_self, *args))
7960 
7961  if self.__class__ != PairContainer:
7962  _director_objects.register(self)
7963 
7964 
7965 
7966 
7967  def do_apply(self, sm):
7968  r"""do_apply(PairContainer self, PairModifier sm)"""
7969  return _IMP_kernel.PairContainer_do_apply(self, sm)
7970 
7971  def do_apply_moved(self, sm, moved_pis, reset_pis):
7972  r"""do_apply_moved(PairContainer self, PairModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7973  return _IMP_kernel.PairContainer_do_apply_moved(self, sm, moved_pis, reset_pis)
7974 
7975  def do_get_provides_access(self):
7976  r"""do_get_provides_access(PairContainer self) -> bool"""
7977  return _IMP_kernel.PairContainer_do_get_provides_access(self)
7978  __swig_destroy__ = _IMP_kernel.delete_PairContainer
7979 
7980  def __str__(self):
7981  r"""__str__(PairContainer self) -> std::string"""
7982  return _IMP_kernel.PairContainer___str__(self)
7983 
7984  def __repr__(self):
7985  r"""__repr__(PairContainer self) -> std::string"""
7986  return _IMP_kernel.PairContainer___repr__(self)
7987 
7988  @staticmethod
7989  def get_from(o):
7990  return _object_cast_to_PairContainer(o)
7991 
7992 
7993  def do_show(self, out):
7994  pass
7995 
7996  @staticmethod
7997  def get_from(o):
7998  return _object_cast_to_PairContainer(o)
7999 
8000  def __disown__(self):
8001  self.this.disown()
8002  _IMP_kernel.disown_PairContainer(self)
8003  return weakref.proxy(self)
8004 
8005  def do_destroy(self):
8006  r"""do_destroy(PairContainer self)"""
8007  return _IMP_kernel.PairContainer_do_destroy(self)
8008 
8009  def handle_set_has_required_score_states(self, arg0):
8010  r"""handle_set_has_required_score_states(PairContainer self, bool arg0)"""
8011  return _IMP_kernel.PairContainer_handle_set_has_required_score_states(self, arg0)
8012 
8013  def do_get_inputs(self):
8014  r"""do_get_inputs(PairContainer self) -> IMP::ModelObjectsTemp"""
8015  return _IMP_kernel.PairContainer_do_get_inputs(self)
8016 
8017  def do_get_interactions(self):
8018  r"""do_get_interactions(PairContainer self) -> IMP::ModelObjectsTemps"""
8019  return _IMP_kernel.PairContainer_do_get_interactions(self)
8020 
8021  def do_get_contents_hash(self):
8022  r"""do_get_contents_hash(PairContainer self) -> std::size_t"""
8023  return _IMP_kernel.PairContainer_do_get_contents_hash(self)
8024 
8025 # Register PairContainer in _IMP_kernel:
8026 _IMP_kernel.PairContainer_swigregister(PairContainer)
8027 class _PairContainerAdaptor(_InputAdaptor):
8028  r"""Proxy of C++ IMP::PairContainerAdaptor class."""
8029 
8030  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
8031  __repr__ = _swig_repr
8032 
8033  def __init__(self, *args):
8034  r"""
8035  __init__(_PairContainerAdaptor self) -> _PairContainerAdaptor
8036  __init__(_PairContainerAdaptor self, PairContainer c) -> _PairContainerAdaptor
8037  __init__(_PairContainerAdaptor self, IMP::ParticlePairsTemp const & t) -> _PairContainerAdaptor
8038  """
8039  _IMP_kernel._PairContainerAdaptor_swiginit(self, _IMP_kernel.new__PairContainerAdaptor(*args))
8040 
8041  def set_name_if_default(self, name):
8042  r"""set_name_if_default(_PairContainerAdaptor self, std::string name)"""
8043  return _IMP_kernel._PairContainerAdaptor_set_name_if_default(self, name)
8044  __swig_destroy__ = _IMP_kernel.delete__PairContainerAdaptor
8045 
8046 # Register _PairContainerAdaptor in _IMP_kernel:
8047 _IMP_kernel._PairContainerAdaptor_swigregister(_PairContainerAdaptor)
8048 class QuadModifier(_ParticleInputs, _ParticleOutputs, Object):
8049  r"""Proxy of C++ IMP::QuadModifier class."""
8050 
8051  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
8052 
8053  def __init__(self, *args):
8054  r"""__init__(QuadModifier self, std::string name="QuadModifier %1%") -> QuadModifier"""
8055  if self.__class__ == QuadModifier:
8056  _self = None
8057  else:
8058  _self = self
8059  _IMP_kernel.QuadModifier_swiginit(self, _IMP_kernel.new_QuadModifier(_self, *args))
8060 
8061  if self.__class__ != QuadModifier:
8062  _director_objects.register(self)
8063 
8064 
8065 
8066 
8067  def apply_index(self, m, v):
8068  r"""apply_index(QuadModifier self, Model m, IMP::ParticleIndexQuad const & v)"""
8069  return _IMP_kernel.QuadModifier_apply_index(self, m, v)
8070 
8071  def apply_indexes(self, m, o, lower_bound, upper_bound):
8072  r"""apply_indexes(QuadModifier self, Model m, IMP::ParticleIndexQuads const & o, unsigned int lower_bound, unsigned int upper_bound)"""
8073  return _IMP_kernel.QuadModifier_apply_indexes(self, m, o, lower_bound, upper_bound)
8074 
8075  def apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis):
8076  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)"""
8077  return _IMP_kernel.QuadModifier_apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis)
8078 
8079  def __str__(self):
8080  r"""__str__(QuadModifier self) -> std::string"""
8081  return _IMP_kernel.QuadModifier___str__(self)
8082 
8083  def __repr__(self):
8084  r"""__repr__(QuadModifier self) -> std::string"""
8085  return _IMP_kernel.QuadModifier___repr__(self)
8086 
8087  @staticmethod
8088  def get_from(o):
8089  return _object_cast_to_QuadModifier(o)
8090 
8091 
8092  def do_show(self, out):
8093  pass
8094 
8095  @staticmethod
8096  def get_from(o):
8097  return _object_cast_to_QuadModifier(o)
8098 
8099  __swig_destroy__ = _IMP_kernel.delete_QuadModifier
8100  def __disown__(self):
8101  self.this.disown()
8102  _IMP_kernel.disown_QuadModifier(self)
8103  return weakref.proxy(self)
8104 
8105  def do_get_inputs(self, m, pis):
8106  r"""do_get_inputs(QuadModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
8107  return _IMP_kernel.QuadModifier_do_get_inputs(self, m, pis)
8108 
8109  def do_get_outputs(self, m, pis):
8110  r"""do_get_outputs(QuadModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
8111  return _IMP_kernel.QuadModifier_do_get_outputs(self, m, pis)
8112 
8113  def do_destroy(self):
8114  r"""do_destroy(QuadModifier self)"""
8115  return _IMP_kernel.QuadModifier_do_destroy(self)
8116 
8117 # Register QuadModifier in _IMP_kernel:
8118 _IMP_kernel.QuadModifier_swigregister(QuadModifier)
8119 class QuadScore(_ParticleInputs, Object):
8120  r"""Proxy of C++ IMP::QuadScore class."""
8121 
8122  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
8123 
8124  def __init__(self, *args):
8125  r"""__init__(QuadScore self, std::string name="QuadScore %1%") -> QuadScore"""
8126  if self.__class__ == QuadScore:
8127  _self = None
8128  else:
8129  _self = self
8130  _IMP_kernel.QuadScore_swiginit(self, _IMP_kernel.new_QuadScore(_self, *args))
8131 
8132  if self.__class__ != QuadScore:
8133  _director_objects.register(self)
8134 
8135 
8136 
8137 
8138  def evaluate_index(self, m, vt, da):
8139  r"""evaluate_index(QuadScore self, Model m, IMP::ParticleIndexQuad const & vt, DerivativeAccumulator da) -> double"""
8140  return _IMP_kernel.QuadScore_evaluate_index(self, m, vt, da)
8141 
8142  def check_indexes(self, m, pis):
8143  r"""check_indexes(QuadScore self, Model m, IMP::ParticleIndexes const & pis) -> bool"""
8144  return _IMP_kernel.QuadScore_check_indexes(self, m, pis)
8145 
8146  def evaluate_indexes(self, m, o, da, lower_bound, upper_bound, all_indexes_checked=False):
8147  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"""
8148  return _IMP_kernel.QuadScore_evaluate_indexes(self, m, o, da, lower_bound, upper_bound, all_indexes_checked)
8149 
8150  def evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score, all_indexes_checked=False):
8151  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"""
8152  return _IMP_kernel.QuadScore_evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score, all_indexes_checked)
8153 
8154  def evaluate_indexes_delta(self, m, o, da, indexes, score, all_indexes_checked=False):
8155  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"""
8156  return _IMP_kernel.QuadScore_evaluate_indexes_delta(self, m, o, da, indexes, score, all_indexes_checked)
8157 
8158  def evaluate_if_good_index(self, m, vt, da, max):
8159  r"""evaluate_if_good_index(QuadScore self, Model m, IMP::ParticleIndexQuad const & vt, DerivativeAccumulator da, double max) -> double"""
8160  return _IMP_kernel.QuadScore_evaluate_if_good_index(self, m, vt, da, max)
8161 
8162  def evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound, all_indexes_checked=False):
8163  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"""
8164  return _IMP_kernel.QuadScore_evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound, all_indexes_checked)
8165 
8166  def create_current_decomposition(self, m, vt):
8167  r"""create_current_decomposition(QuadScore self, Model m, IMP::ParticleIndexQuad const & vt) -> IMP::Restraints"""
8168  return _IMP_kernel.QuadScore_create_current_decomposition(self, m, vt)
8169 
8170  def do_create_current_decomposition(self, m, vt):
8171  r"""do_create_current_decomposition(QuadScore self, Model m, IMP::ParticleIndexQuad const & vt) -> IMP::Restraints"""
8172  return _IMP_kernel.QuadScore_do_create_current_decomposition(self, m, vt)
8173  __swig_destroy__ = _IMP_kernel.delete_QuadScore
8174 
8175  def __str__(self):
8176  r"""__str__(QuadScore self) -> std::string"""
8177  return _IMP_kernel.QuadScore___str__(self)
8178 
8179  def __repr__(self):
8180  r"""__repr__(QuadScore self) -> std::string"""
8181  return _IMP_kernel.QuadScore___repr__(self)
8182 
8183  @staticmethod
8184  def get_from(o):
8185  return _object_cast_to_QuadScore(o)
8186 
8187 
8188  def do_show(self, out):
8189  pass
8190 
8191  @staticmethod
8192  def get_from(o):
8193  return _object_cast_to_QuadScore(o)
8194 
8195  def __disown__(self):
8196  self.this.disown()
8197  _IMP_kernel.disown_QuadScore(self)
8198  return weakref.proxy(self)
8199 
8200  def do_get_inputs(self, m, pis):
8201  r"""do_get_inputs(QuadScore self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
8202  return _IMP_kernel.QuadScore_do_get_inputs(self, m, pis)
8203 
8204  def do_destroy(self):
8205  r"""do_destroy(QuadScore self)"""
8206  return _IMP_kernel.QuadScore_do_destroy(self)
8207 
8208 # Register QuadScore in _IMP_kernel:
8209 _IMP_kernel.QuadScore_swigregister(QuadScore)
8210 class QuadPredicate(_ParticleInputs, Object):
8211  r"""Proxy of C++ IMP::QuadPredicate class."""
8212 
8213  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
8214 
8215  def __init__(self, *args):
8216  r"""__init__(QuadPredicate self, std::string name="QuadPredicate %1%") -> QuadPredicate"""
8217  if self.__class__ == QuadPredicate:
8218  _self = None
8219  else:
8220  _self = self
8221  _IMP_kernel.QuadPredicate_swiginit(self, _IMP_kernel.new_QuadPredicate(_self, *args))
8222 
8223  if self.__class__ != QuadPredicate:
8224  _director_objects.register(self)
8225 
8226 
8227 
8228 
8229  def setup_for_get_value_index_in_batch(self, arg0):
8230  r"""setup_for_get_value_index_in_batch(QuadPredicate self, Model arg0)"""
8231  return _IMP_kernel.QuadPredicate_setup_for_get_value_index_in_batch(self, arg0)
8232 
8233  def get_value_index_in_batch(self, m, vt):
8234  r"""get_value_index_in_batch(QuadPredicate self, Model m, IMP::ParticleIndexQuad const & vt) -> int"""
8235  return _IMP_kernel.QuadPredicate_get_value_index_in_batch(self, m, vt)
8236 
8237  def __call__(self, m, vt):
8238  r"""__call__(QuadPredicate self, Model m, IMP::ParticleIndexQuad const & vt) -> int"""
8239  return _IMP_kernel.QuadPredicate___call__(self, m, vt)
8240 
8241  def get_value_index(self, *args):
8242  r"""
8243  get_value_index(QuadPredicate self, Model m, IMP::ParticleIndexQuad const & vt) -> int
8244  get_value_index(QuadPredicate self, Model m, IMP::ParticleIndexQuads const & o) -> IMP::Ints
8245  """
8246  return _IMP_kernel.QuadPredicate_get_value_index(self, *args)
8247  __swig_destroy__ = _IMP_kernel.delete_QuadPredicate
8248 
8249  def __str__(self):
8250  r"""__str__(QuadPredicate self) -> std::string"""
8251  return _IMP_kernel.QuadPredicate___str__(self)
8252 
8253  def __repr__(self):
8254  r"""__repr__(QuadPredicate self) -> std::string"""
8255  return _IMP_kernel.QuadPredicate___repr__(self)
8256 
8257  @staticmethod
8258  def get_from(o):
8259  return _object_cast_to_QuadPredicate(o)
8260 
8261 
8262  def do_show(self, out):
8263  pass
8264 
8265  @staticmethod
8266  def get_from(o):
8267  return _object_cast_to_QuadPredicate(o)
8268 
8269  def __disown__(self):
8270  self.this.disown()
8271  _IMP_kernel.disown_QuadPredicate(self)
8272  return weakref.proxy(self)
8273 
8274  def do_get_inputs(self, m, pis):
8275  r"""do_get_inputs(QuadPredicate self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
8276  return _IMP_kernel.QuadPredicate_do_get_inputs(self, m, pis)
8277 
8278  def do_destroy(self):
8279  r"""do_destroy(QuadPredicate self)"""
8280  return _IMP_kernel.QuadPredicate_do_destroy(self)
8281 
8282 # Register QuadPredicate in _IMP_kernel:
8283 _IMP_kernel.QuadPredicate_swigregister(QuadPredicate)
8284 class QuadContainer(Container):
8285  r"""Proxy of C++ IMP::QuadContainer class."""
8286 
8287  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
8288 
8289  def apply_generic(self, m):
8290  r"""apply_generic(QuadContainer self, QuadModifier m)"""
8291  return _IMP_kernel.QuadContainer_apply_generic(self, m)
8292 
8293  def apply_generic_moved(self, m, moved_pis, reset_pis):
8294  r"""apply_generic_moved(QuadContainer self, QuadModifier m, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
8295  return _IMP_kernel.QuadContainer_apply_generic_moved(self, m, moved_pis, reset_pis)
8296 
8297  def apply(self, sm):
8298  r"""apply(QuadContainer self, QuadModifier sm)"""
8299  return _IMP_kernel.QuadContainer_apply(self, sm)
8300 
8301  def apply_moved(self, sm, moved_pis, reset_pis):
8302  r"""apply_moved(QuadContainer self, QuadModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
8303  return _IMP_kernel.QuadContainer_apply_moved(self, sm, moved_pis, reset_pis)
8304 
8305  def get_range_indexes(self):
8306  r"""get_range_indexes(QuadContainer self) -> IMP::ParticleIndexQuads"""
8307  return _IMP_kernel.QuadContainer_get_range_indexes(self)
8308 
8309  def get_contents(self):
8310  r"""get_contents(QuadContainer self) -> IMP::ParticleIndexQuads const &"""
8311  return _IMP_kernel.QuadContainer_get_contents(self)
8312 
8313  def get_indexes(self):
8314  r"""get_indexes(QuadContainer self) -> IMP::ParticleIndexQuads"""
8315  return _IMP_kernel.QuadContainer_get_indexes(self)
8316 
8317  def get(self, *args):
8318  r"""
8319  get(QuadContainer self) -> IMP::ParticleQuadsTemp
8320  get(QuadContainer self, unsigned int i) -> IMP::ParticleQuad
8321  """
8322  return _IMP_kernel.QuadContainer_get(self, *args)
8323 
8324  def get_number(self):
8325  r"""get_number(QuadContainer self) -> unsigned int"""
8326  return _IMP_kernel.QuadContainer_get_number(self)
8327 
8328  def __init__(self, *args):
8329  r"""
8330  __init__(QuadContainer self, Model m, std::string name="QuadContainer %1%") -> QuadContainer
8331  __init__(QuadContainer self) -> QuadContainer
8332  """
8333  if self.__class__ == QuadContainer:
8334  _self = None
8335  else:
8336  _self = self
8337  _IMP_kernel.QuadContainer_swiginit(self, _IMP_kernel.new_QuadContainer(_self, *args))
8338 
8339  if self.__class__ != QuadContainer:
8340  _director_objects.register(self)
8341 
8342 
8343 
8344 
8345  def do_apply(self, sm):
8346  r"""do_apply(QuadContainer self, QuadModifier sm)"""
8347  return _IMP_kernel.QuadContainer_do_apply(self, sm)
8348 
8349  def do_apply_moved(self, sm, moved_pis, reset_pis):
8350  r"""do_apply_moved(QuadContainer self, QuadModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
8351  return _IMP_kernel.QuadContainer_do_apply_moved(self, sm, moved_pis, reset_pis)
8352 
8353  def do_get_provides_access(self):
8354  r"""do_get_provides_access(QuadContainer self) -> bool"""
8355  return _IMP_kernel.QuadContainer_do_get_provides_access(self)
8356  __swig_destroy__ = _IMP_kernel.delete_QuadContainer
8357 
8358  def __str__(self):
8359  r"""__str__(QuadContainer self) -> std::string"""
8360  return _IMP_kernel.QuadContainer___str__(self)
8361 
8362  def __repr__(self):
8363  r"""__repr__(QuadContainer self) -> std::string"""
8364  return _IMP_kernel.QuadContainer___repr__(self)
8365 
8366  @staticmethod
8367  def get_from(o):
8368  return _object_cast_to_QuadContainer(o)
8369 
8370 
8371  def do_show(self, out):
8372  pass
8373 
8374  @staticmethod
8375  def get_from(o):
8376  return _object_cast_to_QuadContainer(o)
8377 
8378  def __disown__(self):
8379  self.this.disown()
8380  _IMP_kernel.disown_QuadContainer(self)
8381  return weakref.proxy(self)
8382 
8383  def do_destroy(self):
8384  r"""do_destroy(QuadContainer self)"""
8385  return _IMP_kernel.QuadContainer_do_destroy(self)
8386 
8387  def handle_set_has_required_score_states(self, arg0):
8388  r"""handle_set_has_required_score_states(QuadContainer self, bool arg0)"""
8389  return _IMP_kernel.QuadContainer_handle_set_has_required_score_states(self, arg0)
8390 
8391  def do_get_inputs(self):
8392  r"""do_get_inputs(QuadContainer self) -> IMP::ModelObjectsTemp"""
8393  return _IMP_kernel.QuadContainer_do_get_inputs(self)
8394 
8395  def do_get_interactions(self):
8396  r"""do_get_interactions(QuadContainer self) -> IMP::ModelObjectsTemps"""
8397  return _IMP_kernel.QuadContainer_do_get_interactions(self)
8398 
8399  def do_get_contents_hash(self):
8400  r"""do_get_contents_hash(QuadContainer self) -> std::size_t"""
8401  return _IMP_kernel.QuadContainer_do_get_contents_hash(self)
8402 
8403 # Register QuadContainer in _IMP_kernel:
8404 _IMP_kernel.QuadContainer_swigregister(QuadContainer)
8405 class _QuadContainerAdaptor(_InputAdaptor):
8406  r"""Proxy of C++ IMP::QuadContainerAdaptor class."""
8407 
8408  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
8409  __repr__ = _swig_repr
8410 
8411  def __init__(self, *args):
8412  r"""
8413  __init__(_QuadContainerAdaptor self) -> _QuadContainerAdaptor
8414  __init__(_QuadContainerAdaptor self, QuadContainer c) -> _QuadContainerAdaptor
8415  __init__(_QuadContainerAdaptor self, IMP::ParticleQuadsTemp const & t) -> _QuadContainerAdaptor
8416  """
8417  _IMP_kernel._QuadContainerAdaptor_swiginit(self, _IMP_kernel.new__QuadContainerAdaptor(*args))
8418 
8419  def set_name_if_default(self, name):
8420  r"""set_name_if_default(_QuadContainerAdaptor self, std::string name)"""
8421  return _IMP_kernel._QuadContainerAdaptor_set_name_if_default(self, name)
8422  __swig_destroy__ = _IMP_kernel.delete__QuadContainerAdaptor
8423 
8424 # Register _QuadContainerAdaptor in _IMP_kernel:
8425 _IMP_kernel._QuadContainerAdaptor_swigregister(_QuadContainerAdaptor)
8426 class SingletonModifier(_ParticleInputs, _ParticleOutputs, Object):
8427  r"""Proxy of C++ IMP::SingletonModifier class."""
8428 
8429  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
8430 
8431  def __init__(self, *args):
8432  r"""__init__(SingletonModifier self, std::string name="SingletonModifier %1%") -> SingletonModifier"""
8433  if self.__class__ == SingletonModifier:
8434  _self = None
8435  else:
8436  _self = self
8437  _IMP_kernel.SingletonModifier_swiginit(self, _IMP_kernel.new_SingletonModifier(_self, *args))
8438 
8439  if self.__class__ != SingletonModifier:
8440  _director_objects.register(self)
8441 
8442 
8443 
8444 
8445  def apply_index(self, m, v):
8446  r"""apply_index(SingletonModifier self, Model m, ParticleIndex v)"""
8447  return _IMP_kernel.SingletonModifier_apply_index(self, m, v)
8448 
8449  def apply_indexes(self, m, o, lower_bound, upper_bound):
8450  r"""apply_indexes(SingletonModifier self, Model m, IMP::ParticleIndexes const & o, unsigned int lower_bound, unsigned int upper_bound)"""
8451  return _IMP_kernel.SingletonModifier_apply_indexes(self, m, o, lower_bound, upper_bound)
8452 
8453  def apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis):
8454  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)"""
8455  return _IMP_kernel.SingletonModifier_apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis)
8456 
8457  def __str__(self):
8458  r"""__str__(SingletonModifier self) -> std::string"""
8459  return _IMP_kernel.SingletonModifier___str__(self)
8460 
8461  def __repr__(self):
8462  r"""__repr__(SingletonModifier self) -> std::string"""
8463  return _IMP_kernel.SingletonModifier___repr__(self)
8464 
8465  @staticmethod
8466  def get_from(o):
8467  return _object_cast_to_SingletonModifier(o)
8468 
8469 
8470  def do_show(self, out):
8471  pass
8472 
8473  @staticmethod
8474  def get_from(o):
8475  return _object_cast_to_SingletonModifier(o)
8476 
8477 
8478  def _wrap_jax(self, apply_func, keys=None):
8479  """Create the return value for _get_jax.
8480  Use this method in _get_jax() to wrap the JAX function
8481  with other modifier-specific information.
8482 
8483  @param apply_func A function implemented using JAX that takes
8484  one argument (the current JAX Model) and returns a new
8485  modified JAX Model.
8486  @param keys Model attributes used by the SingletonModifier.
8487  See IMP::Restraint::_wrap_jax.
8488  """
8489  from IMP._jax_util import JAXModifierInfo
8490  return JAXModifierInfo(apply_func=apply_func, keys=keys)
8491 
8492  def _get_jax(self, m, indexes):
8493  """Return a JAX implementation of this SingletonModifier.
8494  Implement this method in a SingletonModifier subclass to provide
8495  an equivalent function using [JAX](https://docs.jax.dev/)
8496  that modifies the current JAX Model. See also _wrap_jax.
8497 
8498  @param m The IMP.Model that the modifier will act on.
8499  @param indexes The ParticleIndexes that the modifier will act on.
8500  """
8501  raise NotImplementedError(
8502  f"No JAX implementation for {self} ({type(self)})")
8503 
8504  __swig_destroy__ = _IMP_kernel.delete_SingletonModifier
8505  def __disown__(self):
8506  self.this.disown()
8507  _IMP_kernel.disown_SingletonModifier(self)
8508  return weakref.proxy(self)
8509 
8510  def do_get_inputs(self, m, pis):
8511  r"""do_get_inputs(SingletonModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
8512  return _IMP_kernel.SingletonModifier_do_get_inputs(self, m, pis)
8513 
8514  def do_get_outputs(self, m, pis):
8515  r"""do_get_outputs(SingletonModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
8516  return _IMP_kernel.SingletonModifier_do_get_outputs(self, m, pis)
8517 
8518  def do_destroy(self):
8519  r"""do_destroy(SingletonModifier self)"""
8520  return _IMP_kernel.SingletonModifier_do_destroy(self)
8521 
8522 # Register SingletonModifier in _IMP_kernel:
8523 _IMP_kernel.SingletonModifier_swigregister(SingletonModifier)
8524 class SingletonScore(_ParticleInputs, Object):
8525  r"""Proxy of C++ IMP::SingletonScore class."""
8526 
8527  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
8528 
8529  def __init__(self, *args):
8530  r"""__init__(SingletonScore self, std::string name="SingletonScore %1%") -> SingletonScore"""
8531  if self.__class__ == SingletonScore:
8532  _self = None
8533  else:
8534  _self = self
8535  _IMP_kernel.SingletonScore_swiginit(self, _IMP_kernel.new_SingletonScore(_self, *args))
8536 
8537  if self.__class__ != SingletonScore:
8538  _director_objects.register(self)
8539 
8540 
8541 
8542 
8543  def evaluate_index(self, m, vt, da):
8544  r"""evaluate_index(SingletonScore self, Model m, ParticleIndex vt, DerivativeAccumulator da) -> double"""
8545  return _IMP_kernel.SingletonScore_evaluate_index(self, m, vt, da)
8546 
8547  def check_indexes(self, m, pis):
8548  r"""check_indexes(SingletonScore self, Model m, IMP::ParticleIndexes const & pis) -> bool"""
8549  return _IMP_kernel.SingletonScore_check_indexes(self, m, pis)
8550 
8551  def evaluate_indexes(self, m, o, da, lower_bound, upper_bound, all_indexes_checked=False):
8552  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"""
8553  return _IMP_kernel.SingletonScore_evaluate_indexes(self, m, o, da, lower_bound, upper_bound, all_indexes_checked)
8554 
8555  def evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score, all_indexes_checked=False):
8556  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"""
8557  return _IMP_kernel.SingletonScore_evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score, all_indexes_checked)
8558 
8559  def evaluate_indexes_delta(self, m, o, da, indexes, score, all_indexes_checked=False):
8560  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"""
8561  return _IMP_kernel.SingletonScore_evaluate_indexes_delta(self, m, o, da, indexes, score, all_indexes_checked)
8562 
8563  def evaluate_if_good_index(self, m, vt, da, max):
8564  r"""evaluate_if_good_index(SingletonScore self, Model m, ParticleIndex vt, DerivativeAccumulator da, double max) -> double"""
8565  return _IMP_kernel.SingletonScore_evaluate_if_good_index(self, m, vt, da, max)
8566 
8567  def evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound, all_indexes_checked=False):
8568  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"""
8569  return _IMP_kernel.SingletonScore_evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound, all_indexes_checked)
8570 
8571  def create_current_decomposition(self, m, vt):
8572  r"""create_current_decomposition(SingletonScore self, Model m, ParticleIndex vt) -> IMP::Restraints"""
8573  return _IMP_kernel.SingletonScore_create_current_decomposition(self, m, vt)
8574 
8575  def do_create_current_decomposition(self, m, vt):
8576  r"""do_create_current_decomposition(SingletonScore self, Model m, ParticleIndex vt) -> IMP::Restraints"""
8577  return _IMP_kernel.SingletonScore_do_create_current_decomposition(self, m, vt)
8578  __swig_destroy__ = _IMP_kernel.delete_SingletonScore
8579 
8580  def __str__(self):
8581  r"""__str__(SingletonScore self) -> std::string"""
8582  return _IMP_kernel.SingletonScore___str__(self)
8583 
8584  def __repr__(self):
8585  r"""__repr__(SingletonScore self) -> std::string"""
8586  return _IMP_kernel.SingletonScore___repr__(self)
8587 
8588  @staticmethod
8589  def get_from(o):
8590  return _object_cast_to_SingletonScore(o)
8591 
8592 
8593  def do_show(self, out):
8594  pass
8595 
8596  @staticmethod
8597  def get_from(o):
8598  return _object_cast_to_SingletonScore(o)
8599 
8600 
8601  def _wrap_jax(self, m, score_func, keys=None):
8602  """See IMP::PairScore::_wrap_jax"""
8603  from IMP._jax_util import JAXScoreInfo
8604  return JAXScoreInfo(m, score_func=score_func, keys=keys)
8605 
8606  def _get_jax(self, m, indexes):
8607  """See IMP::PairScore::_get_jax"""
8608  raise NotImplementedError(
8609  f"No JAX implementation for {self} ({type(self)})")
8610 
8611  def __disown__(self):
8612  self.this.disown()
8613  _IMP_kernel.disown_SingletonScore(self)
8614  return weakref.proxy(self)
8615 
8616  def do_get_inputs(self, m, pis):
8617  r"""do_get_inputs(SingletonScore self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
8618  return _IMP_kernel.SingletonScore_do_get_inputs(self, m, pis)
8619 
8620  def do_destroy(self):
8621  r"""do_destroy(SingletonScore self)"""
8622  return _IMP_kernel.SingletonScore_do_destroy(self)
8623 
8624 # Register SingletonScore in _IMP_kernel:
8625 _IMP_kernel.SingletonScore_swigregister(SingletonScore)
8626 class SingletonPredicate(_ParticleInputs, Object):
8627  r"""Proxy of C++ IMP::SingletonPredicate class."""
8628 
8629  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
8630 
8631  def __init__(self, *args):
8632  r"""__init__(SingletonPredicate self, std::string name="SingletonPredicate %1%") -> SingletonPredicate"""
8633  if self.__class__ == SingletonPredicate:
8634  _self = None
8635  else:
8636  _self = self
8637  _IMP_kernel.SingletonPredicate_swiginit(self, _IMP_kernel.new_SingletonPredicate(_self, *args))
8638 
8639  if self.__class__ != SingletonPredicate:
8640  _director_objects.register(self)
8641 
8642 
8643 
8644 
8645  def setup_for_get_value_index_in_batch(self, arg0):
8646  r"""setup_for_get_value_index_in_batch(SingletonPredicate self, Model arg0)"""
8647  return _IMP_kernel.SingletonPredicate_setup_for_get_value_index_in_batch(self, arg0)
8648 
8649  def get_value_index_in_batch(self, m, vt):
8650  r"""get_value_index_in_batch(SingletonPredicate self, Model m, ParticleIndex vt) -> int"""
8651  return _IMP_kernel.SingletonPredicate_get_value_index_in_batch(self, m, vt)
8652 
8653  def __call__(self, m, vt):
8654  r"""__call__(SingletonPredicate self, Model m, ParticleIndex vt) -> int"""
8655  return _IMP_kernel.SingletonPredicate___call__(self, m, vt)
8656 
8657  def get_value_index(self, *args):
8658  r"""
8659  get_value_index(SingletonPredicate self, Model m, ParticleIndex vt) -> int
8660  get_value_index(SingletonPredicate self, Model m, IMP::ParticleIndexes const & o) -> IMP::Ints
8661  """
8662  return _IMP_kernel.SingletonPredicate_get_value_index(self, *args)
8663  __swig_destroy__ = _IMP_kernel.delete_SingletonPredicate
8664 
8665  def __str__(self):
8666  r"""__str__(SingletonPredicate self) -> std::string"""
8667  return _IMP_kernel.SingletonPredicate___str__(self)
8668 
8669  def __repr__(self):
8670  r"""__repr__(SingletonPredicate self) -> std::string"""
8671  return _IMP_kernel.SingletonPredicate___repr__(self)
8672 
8673  @staticmethod
8674  def get_from(o):
8675  return _object_cast_to_SingletonPredicate(o)
8676 
8677 
8678  def do_show(self, out):
8679  pass
8680 
8681  @staticmethod
8682  def get_from(o):
8683  return _object_cast_to_SingletonPredicate(o)
8684 
8685  def __disown__(self):
8686  self.this.disown()
8687  _IMP_kernel.disown_SingletonPredicate(self)
8688  return weakref.proxy(self)
8689 
8690  def do_get_inputs(self, m, pis):
8691  r"""do_get_inputs(SingletonPredicate self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
8692  return _IMP_kernel.SingletonPredicate_do_get_inputs(self, m, pis)
8693 
8694  def do_destroy(self):
8695  r"""do_destroy(SingletonPredicate self)"""
8696  return _IMP_kernel.SingletonPredicate_do_destroy(self)
8697 
8698 # Register SingletonPredicate in _IMP_kernel:
8699 _IMP_kernel.SingletonPredicate_swigregister(SingletonPredicate)
8701  r"""Proxy of C++ IMP::SingletonContainer class."""
8702 
8703  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
8704 
8705  def apply_generic(self, m):
8706  r"""apply_generic(SingletonContainer self, SingletonModifier m)"""
8707  return _IMP_kernel.SingletonContainer_apply_generic(self, m)
8708 
8709  def apply_generic_moved(self, m, moved_pis, reset_pis):
8710  r"""apply_generic_moved(SingletonContainer self, SingletonModifier m, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
8711  return _IMP_kernel.SingletonContainer_apply_generic_moved(self, m, moved_pis, reset_pis)
8712 
8713  def apply(self, sm):
8714  r"""apply(SingletonContainer self, SingletonModifier sm)"""
8715  return _IMP_kernel.SingletonContainer_apply(self, sm)
8716 
8717  def apply_moved(self, sm, moved_pis, reset_pis):
8718  r"""apply_moved(SingletonContainer self, SingletonModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
8719  return _IMP_kernel.SingletonContainer_apply_moved(self, sm, moved_pis, reset_pis)
8720 
8721  def get_range_indexes(self):
8722  r"""get_range_indexes(SingletonContainer self) -> IMP::ParticleIndexes"""
8723  return _IMP_kernel.SingletonContainer_get_range_indexes(self)
8724 
8725  def get_contents(self):
8726  r"""get_contents(SingletonContainer self) -> IMP::ParticleIndexes const &"""
8727  return _IMP_kernel.SingletonContainer_get_contents(self)
8728 
8729  def get_indexes(self):
8730  r"""get_indexes(SingletonContainer self) -> IMP::ParticleIndexes"""
8731  return _IMP_kernel.SingletonContainer_get_indexes(self)
8732 
8733  def get(self, *args):
8734  r"""
8735  get(SingletonContainer self) -> IMP::ParticlesTemp
8736  get(SingletonContainer self, unsigned int i) -> Particle
8737  """
8738  return _IMP_kernel.SingletonContainer_get(self, *args)
8739 
8740  def get_number(self):
8741  r"""get_number(SingletonContainer self) -> unsigned int"""
8742  return _IMP_kernel.SingletonContainer_get_number(self)
8743 
8744  def __init__(self, *args):
8745  r"""
8746  __init__(SingletonContainer self, Model m, std::string name="SingletonContainer %1%") -> SingletonContainer
8747  __init__(SingletonContainer self) -> SingletonContainer
8748  """
8749  if self.__class__ == SingletonContainer:
8750  _self = None
8751  else:
8752  _self = self
8753  _IMP_kernel.SingletonContainer_swiginit(self, _IMP_kernel.new_SingletonContainer(_self, *args))
8754 
8755  if self.__class__ != SingletonContainer:
8756  _director_objects.register(self)
8757 
8758 
8759 
8760 
8761  def do_apply(self, sm):
8762  r"""do_apply(SingletonContainer self, SingletonModifier sm)"""
8763  return _IMP_kernel.SingletonContainer_do_apply(self, sm)
8764 
8765  def do_apply_moved(self, sm, moved_pis, reset_pis):
8766  r"""do_apply_moved(SingletonContainer self, SingletonModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
8767  return _IMP_kernel.SingletonContainer_do_apply_moved(self, sm, moved_pis, reset_pis)
8768 
8769  def do_get_provides_access(self):
8770  r"""do_get_provides_access(SingletonContainer self) -> bool"""
8771  return _IMP_kernel.SingletonContainer_do_get_provides_access(self)
8772  __swig_destroy__ = _IMP_kernel.delete_SingletonContainer
8773 
8774  def __str__(self):
8775  r"""__str__(SingletonContainer self) -> std::string"""
8776  return _IMP_kernel.SingletonContainer___str__(self)
8777 
8778  def __repr__(self):
8779  r"""__repr__(SingletonContainer self) -> std::string"""
8780  return _IMP_kernel.SingletonContainer___repr__(self)
8781 
8782  @staticmethod
8783  def get_from(o):
8784  return _object_cast_to_SingletonContainer(o)
8785 
8786 
8787  def do_show(self, out):
8788  pass
8789 
8790  @staticmethod
8791  def get_from(o):
8792  return _object_cast_to_SingletonContainer(o)
8793 
8794  def __disown__(self):
8795  self.this.disown()
8796  _IMP_kernel.disown_SingletonContainer(self)
8797  return weakref.proxy(self)
8798 
8799  def do_destroy(self):
8800  r"""do_destroy(SingletonContainer self)"""
8801  return _IMP_kernel.SingletonContainer_do_destroy(self)
8802 
8803  def handle_set_has_required_score_states(self, arg0):
8804  r"""handle_set_has_required_score_states(SingletonContainer self, bool arg0)"""
8805  return _IMP_kernel.SingletonContainer_handle_set_has_required_score_states(self, arg0)
8806 
8807  def do_get_inputs(self):
8808  r"""do_get_inputs(SingletonContainer self) -> IMP::ModelObjectsTemp"""
8809  return _IMP_kernel.SingletonContainer_do_get_inputs(self)
8810 
8811  def do_get_interactions(self):
8812  r"""do_get_interactions(SingletonContainer self) -> IMP::ModelObjectsTemps"""
8813  return _IMP_kernel.SingletonContainer_do_get_interactions(self)
8814 
8815  def do_get_contents_hash(self):
8816  r"""do_get_contents_hash(SingletonContainer self) -> std::size_t"""
8817  return _IMP_kernel.SingletonContainer_do_get_contents_hash(self)
8818 
8819 # Register SingletonContainer in _IMP_kernel:
8820 _IMP_kernel.SingletonContainer_swigregister(SingletonContainer)
8821 class _SingletonContainerAdaptor(_InputAdaptor):
8822  r"""Proxy of C++ IMP::SingletonContainerAdaptor class."""
8823 
8824  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
8825  __repr__ = _swig_repr
8826 
8827  def __init__(self, *args):
8828  r"""
8829  __init__(_SingletonContainerAdaptor self) -> _SingletonContainerAdaptor
8830  __init__(_SingletonContainerAdaptor self, SingletonContainer c) -> _SingletonContainerAdaptor
8831  __init__(_SingletonContainerAdaptor self, IMP::ParticlesTemp const & t) -> _SingletonContainerAdaptor
8832  """
8833  _IMP_kernel._SingletonContainerAdaptor_swiginit(self, _IMP_kernel.new__SingletonContainerAdaptor(*args))
8834 
8835  def set_name_if_default(self, name):
8836  r"""set_name_if_default(_SingletonContainerAdaptor self, std::string name)"""
8837  return _IMP_kernel._SingletonContainerAdaptor_set_name_if_default(self, name)
8838  __swig_destroy__ = _IMP_kernel.delete__SingletonContainerAdaptor
8839 
8840 # Register _SingletonContainerAdaptor in _IMP_kernel:
8841 _IMP_kernel._SingletonContainerAdaptor_swigregister(_SingletonContainerAdaptor)
8842 class TripletModifier(_ParticleInputs, _ParticleOutputs, Object):
8843  r"""Proxy of C++ IMP::TripletModifier class."""
8844 
8845  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
8846 
8847  def __init__(self, *args):
8848  r"""__init__(TripletModifier self, std::string name="TripletModifier %1%") -> TripletModifier"""
8849  if self.__class__ == TripletModifier:
8850  _self = None
8851  else:
8852  _self = self
8853  _IMP_kernel.TripletModifier_swiginit(self, _IMP_kernel.new_TripletModifier(_self, *args))
8854 
8855  if self.__class__ != TripletModifier:
8856  _director_objects.register(self)
8857 
8858 
8859 
8860 
8861  def apply_index(self, m, v):
8862  r"""apply_index(TripletModifier self, Model m, IMP::ParticleIndexTriplet const & v)"""
8863  return _IMP_kernel.TripletModifier_apply_index(self, m, v)
8864 
8865  def apply_indexes(self, m, o, lower_bound, upper_bound):
8866  r"""apply_indexes(TripletModifier self, Model m, IMP::ParticleIndexTriplets const & o, unsigned int lower_bound, unsigned int upper_bound)"""
8867  return _IMP_kernel.TripletModifier_apply_indexes(self, m, o, lower_bound, upper_bound)
8868 
8869  def apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis):
8870  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)"""
8871  return _IMP_kernel.TripletModifier_apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis)
8872 
8873  def __str__(self):
8874  r"""__str__(TripletModifier self) -> std::string"""
8875  return _IMP_kernel.TripletModifier___str__(self)
8876 
8877  def __repr__(self):
8878  r"""__repr__(TripletModifier self) -> std::string"""
8879  return _IMP_kernel.TripletModifier___repr__(self)
8880 
8881  @staticmethod
8882  def get_from(o):
8883  return _object_cast_to_TripletModifier(o)
8884 
8885 
8886  def do_show(self, out):
8887  pass
8888 
8889  @staticmethod
8890  def get_from(o):
8891  return _object_cast_to_TripletModifier(o)
8892 
8893  __swig_destroy__ = _IMP_kernel.delete_TripletModifier
8894  def __disown__(self):
8895  self.this.disown()
8896  _IMP_kernel.disown_TripletModifier(self)
8897  return weakref.proxy(self)
8898 
8899  def do_get_inputs(self, m, pis):
8900  r"""do_get_inputs(TripletModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
8901  return _IMP_kernel.TripletModifier_do_get_inputs(self, m, pis)
8902 
8903  def do_get_outputs(self, m, pis):
8904  r"""do_get_outputs(TripletModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
8905  return _IMP_kernel.TripletModifier_do_get_outputs(self, m, pis)
8906 
8907  def do_destroy(self):
8908  r"""do_destroy(TripletModifier self)"""
8909  return _IMP_kernel.TripletModifier_do_destroy(self)
8910 
8911 # Register TripletModifier in _IMP_kernel:
8912 _IMP_kernel.TripletModifier_swigregister(TripletModifier)
8913 class TripletScore(_ParticleInputs, Object):
8914  r"""Proxy of C++ IMP::TripletScore class."""
8915 
8916  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
8917 
8918  def __init__(self, *args):
8919  r"""__init__(TripletScore self, std::string name="TripletScore %1%") -> TripletScore"""
8920  if self.__class__ == TripletScore:
8921  _self = None
8922  else:
8923  _self = self
8924  _IMP_kernel.TripletScore_swiginit(self, _IMP_kernel.new_TripletScore(_self, *args))
8925 
8926  if self.__class__ != TripletScore:
8927  _director_objects.register(self)
8928 
8929 
8930 
8931 
8932  def evaluate_index(self, m, vt, da):
8933  r"""evaluate_index(TripletScore self, Model m, IMP::ParticleIndexTriplet const & vt, DerivativeAccumulator da) -> double"""
8934  return _IMP_kernel.TripletScore_evaluate_index(self, m, vt, da)
8935 
8936  def check_indexes(self, m, pis):
8937  r"""check_indexes(TripletScore self, Model m, IMP::ParticleIndexes const & pis) -> bool"""
8938  return _IMP_kernel.TripletScore_check_indexes(self, m, pis)
8939 
8940  def evaluate_indexes(self, m, o, da, lower_bound, upper_bound, all_indexes_checked=False):
8941  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"""
8942  return _IMP_kernel.TripletScore_evaluate_indexes(self, m, o, da, lower_bound, upper_bound, all_indexes_checked)
8943 
8944  def evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score, all_indexes_checked=False):
8945  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"""
8946  return _IMP_kernel.TripletScore_evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score, all_indexes_checked)
8947 
8948  def evaluate_indexes_delta(self, m, o, da, indexes, score, all_indexes_checked=False):
8949  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"""
8950  return _IMP_kernel.TripletScore_evaluate_indexes_delta(self, m, o, da, indexes, score, all_indexes_checked)
8951 
8952  def evaluate_if_good_index(self, m, vt, da, max):
8953  r"""evaluate_if_good_index(TripletScore self, Model m, IMP::ParticleIndexTriplet const & vt, DerivativeAccumulator da, double max) -> double"""
8954  return _IMP_kernel.TripletScore_evaluate_if_good_index(self, m, vt, da, max)
8955 
8956  def evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound, all_indexes_checked=False):
8957  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"""
8958  return _IMP_kernel.TripletScore_evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound, all_indexes_checked)
8959 
8960  def create_current_decomposition(self, m, vt):
8961  r"""create_current_decomposition(TripletScore self, Model m, IMP::ParticleIndexTriplet const & vt) -> IMP::Restraints"""
8962  return _IMP_kernel.TripletScore_create_current_decomposition(self, m, vt)
8963 
8964  def do_create_current_decomposition(self, m, vt):
8965  r"""do_create_current_decomposition(TripletScore self, Model m, IMP::ParticleIndexTriplet const & vt) -> IMP::Restraints"""
8966  return _IMP_kernel.TripletScore_do_create_current_decomposition(self, m, vt)
8967  __swig_destroy__ = _IMP_kernel.delete_TripletScore
8968 
8969  def __str__(self):
8970  r"""__str__(TripletScore self) -> std::string"""
8971  return _IMP_kernel.TripletScore___str__(self)
8972 
8973  def __repr__(self):
8974  r"""__repr__(TripletScore self) -> std::string"""
8975  return _IMP_kernel.TripletScore___repr__(self)
8976 
8977  @staticmethod
8978  def get_from(o):
8979  return _object_cast_to_TripletScore(o)
8980 
8981 
8982  def do_show(self, out):
8983  pass
8984 
8985  @staticmethod
8986  def get_from(o):
8987  return _object_cast_to_TripletScore(o)
8988 
8989  def __disown__(self):
8990  self.this.disown()
8991  _IMP_kernel.disown_TripletScore(self)
8992  return weakref.proxy(self)
8993 
8994  def do_get_inputs(self, m, pis):
8995  r"""do_get_inputs(TripletScore self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
8996  return _IMP_kernel.TripletScore_do_get_inputs(self, m, pis)
8997 
8998  def do_destroy(self):
8999  r"""do_destroy(TripletScore self)"""
9000  return _IMP_kernel.TripletScore_do_destroy(self)
9001 
9002 # Register TripletScore in _IMP_kernel:
9003 _IMP_kernel.TripletScore_swigregister(TripletScore)
9004 class TripletPredicate(_ParticleInputs, Object):
9005  r"""Proxy of C++ IMP::TripletPredicate class."""
9006 
9007  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
9008 
9009  def __init__(self, *args):
9010  r"""__init__(TripletPredicate self, std::string name="TripletPredicate %1%") -> TripletPredicate"""
9011  if self.__class__ == TripletPredicate:
9012  _self = None
9013  else:
9014  _self = self
9015  _IMP_kernel.TripletPredicate_swiginit(self, _IMP_kernel.new_TripletPredicate(_self, *args))
9016 
9017  if self.__class__ != TripletPredicate:
9018  _director_objects.register(self)
9019 
9020 
9021 
9022 
9023  def setup_for_get_value_index_in_batch(self, arg0):
9024  r"""setup_for_get_value_index_in_batch(TripletPredicate self, Model arg0)"""
9025  return _IMP_kernel.TripletPredicate_setup_for_get_value_index_in_batch(self, arg0)
9026 
9027  def get_value_index_in_batch(self, m, vt):
9028  r"""get_value_index_in_batch(TripletPredicate self, Model m, IMP::ParticleIndexTriplet const & vt) -> int"""
9029  return _IMP_kernel.TripletPredicate_get_value_index_in_batch(self, m, vt)
9030 
9031  def __call__(self, m, vt):
9032  r"""__call__(TripletPredicate self, Model m, IMP::ParticleIndexTriplet const & vt) -> int"""
9033  return _IMP_kernel.TripletPredicate___call__(self, m, vt)
9034 
9035  def get_value_index(self, *args):
9036  r"""
9037  get_value_index(TripletPredicate self, Model m, IMP::ParticleIndexTriplet const & vt) -> int
9038  get_value_index(TripletPredicate self, Model m, IMP::ParticleIndexTriplets const & o) -> IMP::Ints
9039  """
9040  return _IMP_kernel.TripletPredicate_get_value_index(self, *args)
9041  __swig_destroy__ = _IMP_kernel.delete_TripletPredicate
9042 
9043  def __str__(self):
9044  r"""__str__(TripletPredicate self) -> std::string"""
9045  return _IMP_kernel.TripletPredicate___str__(self)
9046 
9047  def __repr__(self):
9048  r"""__repr__(TripletPredicate self) -> std::string"""
9049  return _IMP_kernel.TripletPredicate___repr__(self)
9050 
9051  @staticmethod
9052  def get_from(o):
9053  return _object_cast_to_TripletPredicate(o)
9054 
9055 
9056  def do_show(self, out):
9057  pass
9058 
9059  @staticmethod
9060  def get_from(o):
9061  return _object_cast_to_TripletPredicate(o)
9062 
9063  def __disown__(self):
9064  self.this.disown()
9065  _IMP_kernel.disown_TripletPredicate(self)
9066  return weakref.proxy(self)
9067 
9068  def do_get_inputs(self, m, pis):
9069  r"""do_get_inputs(TripletPredicate self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
9070  return _IMP_kernel.TripletPredicate_do_get_inputs(self, m, pis)
9071 
9072  def do_destroy(self):
9073  r"""do_destroy(TripletPredicate self)"""
9074  return _IMP_kernel.TripletPredicate_do_destroy(self)
9075 
9076 # Register TripletPredicate in _IMP_kernel:
9077 _IMP_kernel.TripletPredicate_swigregister(TripletPredicate)
9079  r"""Proxy of C++ IMP::TripletContainer class."""
9080 
9081  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
9082 
9083  def apply_generic(self, m):
9084  r"""apply_generic(TripletContainer self, TripletModifier m)"""
9085  return _IMP_kernel.TripletContainer_apply_generic(self, m)
9086 
9087  def apply_generic_moved(self, m, moved_pis, reset_pis):
9088  r"""apply_generic_moved(TripletContainer self, TripletModifier m, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
9089  return _IMP_kernel.TripletContainer_apply_generic_moved(self, m, moved_pis, reset_pis)
9090 
9091  def apply(self, sm):
9092  r"""apply(TripletContainer self, TripletModifier sm)"""
9093  return _IMP_kernel.TripletContainer_apply(self, sm)
9094 
9095  def apply_moved(self, sm, moved_pis, reset_pis):
9096  r"""apply_moved(TripletContainer self, TripletModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
9097  return _IMP_kernel.TripletContainer_apply_moved(self, sm, moved_pis, reset_pis)
9098 
9099  def get_range_indexes(self):
9100  r"""get_range_indexes(TripletContainer self) -> IMP::ParticleIndexTriplets"""
9101  return _IMP_kernel.TripletContainer_get_range_indexes(self)
9102 
9103  def get_contents(self):
9104  r"""get_contents(TripletContainer self) -> IMP::ParticleIndexTriplets const &"""
9105  return _IMP_kernel.TripletContainer_get_contents(self)
9106 
9107  def get_indexes(self):
9108  r"""get_indexes(TripletContainer self) -> IMP::ParticleIndexTriplets"""
9109  return _IMP_kernel.TripletContainer_get_indexes(self)
9110 
9111  def get(self, *args):
9112  r"""
9113  get(TripletContainer self) -> IMP::ParticleTripletsTemp
9114  get(TripletContainer self, unsigned int i) -> IMP::ParticleTriplet
9115  """
9116  return _IMP_kernel.TripletContainer_get(self, *args)
9117 
9118  def get_number(self):
9119  r"""get_number(TripletContainer self) -> unsigned int"""
9120  return _IMP_kernel.TripletContainer_get_number(self)
9121 
9122  def __init__(self, *args):
9123  r"""
9124  __init__(TripletContainer self, Model m, std::string name="TripletContainer %1%") -> TripletContainer
9125  __init__(TripletContainer self) -> TripletContainer
9126  """
9127  if self.__class__ == TripletContainer:
9128  _self = None
9129  else:
9130  _self = self
9131  _IMP_kernel.TripletContainer_swiginit(self, _IMP_kernel.new_TripletContainer(_self, *args))
9132 
9133  if self.__class__ != TripletContainer:
9134  _director_objects.register(self)
9135 
9136 
9137 
9138 
9139  def do_apply(self, sm):
9140  r"""do_apply(TripletContainer self, TripletModifier sm)"""
9141  return _IMP_kernel.TripletContainer_do_apply(self, sm)
9142 
9143  def do_apply_moved(self, sm, moved_pis, reset_pis):
9144  r"""do_apply_moved(TripletContainer self, TripletModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
9145  return _IMP_kernel.TripletContainer_do_apply_moved(self, sm, moved_pis, reset_pis)
9146 
9147  def do_get_provides_access(self):
9148  r"""do_get_provides_access(TripletContainer self) -> bool"""
9149  return _IMP_kernel.TripletContainer_do_get_provides_access(self)
9150  __swig_destroy__ = _IMP_kernel.delete_TripletContainer
9151 
9152  def __str__(self):
9153  r"""__str__(TripletContainer self) -> std::string"""
9154  return _IMP_kernel.TripletContainer___str__(self)
9155 
9156  def __repr__(self):
9157  r"""__repr__(TripletContainer self) -> std::string"""
9158  return _IMP_kernel.TripletContainer___repr__(self)
9159 
9160  @staticmethod
9161  def get_from(o):
9162  return _object_cast_to_TripletContainer(o)
9163 
9164 
9165  def do_show(self, out):
9166  pass
9167 
9168  @staticmethod
9169  def get_from(o):
9170  return _object_cast_to_TripletContainer(o)
9171 
9172  def __disown__(self):
9173  self.this.disown()
9174  _IMP_kernel.disown_TripletContainer(self)
9175  return weakref.proxy(self)
9176 
9177  def do_destroy(self):
9178  r"""do_destroy(TripletContainer self)"""
9179  return _IMP_kernel.TripletContainer_do_destroy(self)
9180 
9181  def handle_set_has_required_score_states(self, arg0):
9182  r"""handle_set_has_required_score_states(TripletContainer self, bool arg0)"""
9183  return _IMP_kernel.TripletContainer_handle_set_has_required_score_states(self, arg0)
9184 
9185  def do_get_inputs(self):
9186  r"""do_get_inputs(TripletContainer self) -> IMP::ModelObjectsTemp"""
9187  return _IMP_kernel.TripletContainer_do_get_inputs(self)
9188 
9189  def do_get_interactions(self):
9190  r"""do_get_interactions(TripletContainer self) -> IMP::ModelObjectsTemps"""
9191  return _IMP_kernel.TripletContainer_do_get_interactions(self)
9192 
9193  def do_get_contents_hash(self):
9194  r"""do_get_contents_hash(TripletContainer self) -> std::size_t"""
9195  return _IMP_kernel.TripletContainer_do_get_contents_hash(self)
9196 
9197 # Register TripletContainer in _IMP_kernel:
9198 _IMP_kernel.TripletContainer_swigregister(TripletContainer)
9199 class _TripletContainerAdaptor(_InputAdaptor):
9200  r"""Proxy of C++ IMP::TripletContainerAdaptor class."""
9201 
9202  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
9203  __repr__ = _swig_repr
9204 
9205  def __init__(self, *args):
9206  r"""
9207  __init__(_TripletContainerAdaptor self) -> _TripletContainerAdaptor
9208  __init__(_TripletContainerAdaptor self, TripletContainer c) -> _TripletContainerAdaptor
9209  __init__(_TripletContainerAdaptor self, IMP::ParticleTripletsTemp const & t) -> _TripletContainerAdaptor
9210  """
9211  _IMP_kernel._TripletContainerAdaptor_swiginit(self, _IMP_kernel.new__TripletContainerAdaptor(*args))
9212 
9213  def set_name_if_default(self, name):
9214  r"""set_name_if_default(_TripletContainerAdaptor self, std::string name)"""
9215  return _IMP_kernel._TripletContainerAdaptor_set_name_if_default(self, name)
9216  __swig_destroy__ = _IMP_kernel.delete__TripletContainerAdaptor
9217 
9218 # Register _TripletContainerAdaptor in _IMP_kernel:
9219 _IMP_kernel._TripletContainerAdaptor_swigregister(_TripletContainerAdaptor)
9220 
9221 def write_particles_to_buffer(particles, keys):
9222  r"""write_particles_to_buffer(IMP::ParticlesTemp const & particles, IMP::FloatKeys const & keys) -> IMP::Vector< char,std::allocator< char > >"""
9223  return _IMP_kernel.write_particles_to_buffer(particles, keys)
9224 
9225 def read_particles_from_buffer(buffer, particles, keys):
9226  r"""read_particles_from_buffer(IMP::Vector< char,std::allocator< char > > const & buffer, IMP::ParticlesTemp const & particles, IMP::FloatKeys const & keys)"""
9227  return _IMP_kernel.read_particles_from_buffer(buffer, particles, keys)
9228 
9229 def get_particles(m, ps):
9230  r"""get_particles(Model m, IMP::ParticleIndexes const & ps) -> IMP::ParticlesTemp"""
9231  return _IMP_kernel.get_particles(m, ps)
9232 
9233 def get_indexes(*args):
9234  r"""
9235  get_indexes(IMP::ParticlesTemp const & ps) -> IMP::ParticleIndexes
9236  get_indexes(IMP::ParticlePairsTemp const & ps) -> IMP::ParticleIndexPairs
9237  """
9238  return _IMP_kernel.get_indexes(*args)
9239 class _ParticleIndexAdaptor(object):
9240  r"""Proxy of C++ IMP::ParticleIndexAdaptor class."""
9241 
9242  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
9243  __repr__ = _swig_repr
9244 
9245  def __init__(self, *args):
9246  r"""
9247  __init__(_ParticleIndexAdaptor self, Particle p) -> _ParticleIndexAdaptor
9248  __init__(_ParticleIndexAdaptor self, ParticleIndex pi) -> _ParticleIndexAdaptor
9249  __init__(_ParticleIndexAdaptor self, Decorator d) -> _ParticleIndexAdaptor
9250  """
9251  _IMP_kernel._ParticleIndexAdaptor_swiginit(self, _IMP_kernel.new__ParticleIndexAdaptor(*args))
9252  __swig_destroy__ = _IMP_kernel.delete__ParticleIndexAdaptor
9253 
9254 # Register _ParticleIndexAdaptor in _IMP_kernel:
9255 _IMP_kernel._ParticleIndexAdaptor_swigregister(_ParticleIndexAdaptor)
9256 class _ParticleIndexesAdaptor(_InputAdaptor):
9257  r"""Proxy of C++ IMP::ParticleIndexesAdaptor class."""
9258 
9259  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
9260  __repr__ = _swig_repr
9261 
9262  def __init__(self, *args):
9263  r"""
9264  __init__(_ParticleIndexesAdaptor self, IMP::ParticlesTemp const & ps) -> _ParticleIndexesAdaptor
9265  __init__(_ParticleIndexesAdaptor self, IMP::ParticleIndexes const & pi) -> _ParticleIndexesAdaptor
9266  __init__(_ParticleIndexesAdaptor self) -> _ParticleIndexesAdaptor
9267  """
9268  _IMP_kernel._ParticleIndexesAdaptor_swiginit(self, _IMP_kernel.new__ParticleIndexesAdaptor(*args))
9269  __swig_destroy__ = _IMP_kernel.delete__ParticleIndexesAdaptor
9270 
9271 # Register _ParticleIndexesAdaptor in _IMP_kernel:
9272 _IMP_kernel._ParticleIndexesAdaptor_swigregister(_ParticleIndexesAdaptor)
9273 class _ParticleIndexPairsAdaptor(object):
9274  r"""Proxy of C++ IMP::ParticleIndexPairsAdaptor class."""
9275 
9276  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
9277  __repr__ = _swig_repr
9278 
9279  def __init__(self, *args):
9280  r"""
9281  __init__(_ParticleIndexPairsAdaptor self, IMP::ParticlePairsTemp const & ps) -> _ParticleIndexPairsAdaptor
9282  __init__(_ParticleIndexPairsAdaptor self, IMP::ParticleIndexPairs const & pi) -> _ParticleIndexPairsAdaptor
9283  __init__(_ParticleIndexPairsAdaptor self) -> _ParticleIndexPairsAdaptor
9284  """
9285  _IMP_kernel._ParticleIndexPairsAdaptor_swiginit(self, _IMP_kernel.new__ParticleIndexPairsAdaptor(*args))
9286  __swig_destroy__ = _IMP_kernel.delete__ParticleIndexPairsAdaptor
9287 
9288 # Register _ParticleIndexPairsAdaptor in _IMP_kernel:
9289 _IMP_kernel._ParticleIndexPairsAdaptor_swigregister(_ParticleIndexPairsAdaptor)
9290 class _ConstRestraint(Restraint):
9291  r"""Proxy of C++ IMP::internal::_ConstRestraint class."""
9292 
9293  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
9294 
9295  def __init__(self, *args):
9296  r"""
9297  __init__(_ConstRestraint self, Model m, IMP::ParticleIndexes const & pis, double v) -> _ConstRestraint
9298  __init__(_ConstRestraint self) -> _ConstRestraint
9299  """
9300  _IMP_kernel._ConstRestraint_swiginit(self, _IMP_kernel.new__ConstRestraint(*args))
9301 
9302  def get_value(self):
9303  r"""get_value(_ConstRestraint self) -> double"""
9304  return _IMP_kernel._ConstRestraint_get_value(self)
9305 
9306  def do_create_decomposition(self):
9307  r"""do_create_decomposition(_ConstRestraint self) -> IMP::Restraints"""
9308  return _IMP_kernel._ConstRestraint_do_create_decomposition(self)
9309 
9310  def do_get_inputs(self):
9311  r"""do_get_inputs(_ConstRestraint self) -> IMP::ModelObjectsTemp"""
9312  return _IMP_kernel._ConstRestraint_do_get_inputs(self)
9313 
9314  def get_version_info(self):
9315  r"""get_version_info(_ConstRestraint self) -> VersionInfo"""
9316  return _IMP_kernel._ConstRestraint_get_version_info(self)
9317  __swig_destroy__ = _IMP_kernel.delete__ConstRestraint
9318 
9319  def __str__(self):
9320  r"""__str__(_ConstRestraint self) -> std::string"""
9321  return _IMP_kernel._ConstRestraint___str__(self)
9322 
9323  def __repr__(self):
9324  r"""__repr__(_ConstRestraint self) -> std::string"""
9325  return _IMP_kernel._ConstRestraint___repr__(self)
9326 
9327  @staticmethod
9328  def get_from(o):
9329  return _object_cast_to__ConstRestraint(o)
9330 
9331 
9332  def _get_as_binary(self):
9333  r"""_get_as_binary(_ConstRestraint self) -> PyObject *"""
9334  return _IMP_kernel._ConstRestraint__get_as_binary(self)
9335 
9336  def _set_from_binary(self, p):
9337  r"""_set_from_binary(_ConstRestraint self, PyObject * p)"""
9338  return _IMP_kernel._ConstRestraint__set_from_binary(self, p)
9339 
9340  def __getstate__(self):
9341  p = self._get_as_binary()
9342  if len(self.__dict__) > 1:
9343  d = self.__dict__.copy()
9344  del d['this']
9345  p = (d, p)
9346  return p
9347 
9348  def __setstate__(self, p):
9349  if not hasattr(self, 'this'):
9350  self.__init__()
9351  if isinstance(p, tuple):
9352  d, p = p
9353  self.__dict__.update(d)
9354  return self._set_from_binary(p)
9355 
9356 
9357  def _get_jax(self):
9358  value = self.get_value()
9359  # We always return `value` regardless of the JAX Model
9360  return self._wrap_jax(lambda jm: value)
9361 
9362 
9363 # Register _ConstRestraint in _IMP_kernel:
9364 _IMP_kernel._ConstRestraint_swigregister(_ConstRestraint)
9365 class _ConstSingletonScore(SingletonScore):
9366  r"""Proxy of C++ IMP::internal::_ConstSingletonScore class."""
9367 
9368  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
9369 
9370  def __init__(self, *args):
9371  r"""
9372  __init__(_ConstSingletonScore self, double v) -> _ConstSingletonScore
9373  __init__(_ConstSingletonScore self) -> _ConstSingletonScore
9374  """
9375  _IMP_kernel._ConstSingletonScore_swiginit(self, _IMP_kernel.new__ConstSingletonScore(*args))
9376 
9377  def get_value(self):
9378  r"""get_value(_ConstSingletonScore self) -> double"""
9379  return _IMP_kernel._ConstSingletonScore_get_value(self)
9380 
9381  def do_get_inputs(self, arg2, arg3):
9382  r"""do_get_inputs(_ConstSingletonScore self, Model arg2, IMP::ParticleIndexes const & arg3) -> IMP::ModelObjectsTemp"""
9383  return _IMP_kernel._ConstSingletonScore_do_get_inputs(self, arg2, arg3)
9384 
9385  def evaluate_indexes(self, m, p, da, lower_bound, upper_bound, all_indexes_checked=False):
9386  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"""
9387  return _IMP_kernel._ConstSingletonScore_evaluate_indexes(self, m, p, da, lower_bound, upper_bound, all_indexes_checked)
9388 
9389  def evaluate_indexes_scores(self, m, p, da, lower_bound, upper_bound, score, all_indexes_checked=False):
9390  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"""
9391  return _IMP_kernel._ConstSingletonScore_evaluate_indexes_scores(self, m, p, da, lower_bound, upper_bound, score, all_indexes_checked)
9392 
9393  def evaluate_indexes_delta(self, m, p, da, indexes, score, all_indexes_checked=False):
9394  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"""
9395  return _IMP_kernel._ConstSingletonScore_evaluate_indexes_delta(self, m, p, da, indexes, score, all_indexes_checked)
9396 
9397  def evaluate_if_good_indexes(self, m, p, da, max, lower_bound, upper_bound, all_indexes_checked=False):
9398  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"""
9399  return _IMP_kernel._ConstSingletonScore_evaluate_if_good_indexes(self, m, p, da, max, lower_bound, upper_bound, all_indexes_checked)
9400 
9401  def get_version_info(self):
9402  r"""get_version_info(_ConstSingletonScore self) -> VersionInfo"""
9403  return _IMP_kernel._ConstSingletonScore_get_version_info(self)
9404  __swig_destroy__ = _IMP_kernel.delete__ConstSingletonScore
9405 
9406  def __str__(self):
9407  r"""__str__(_ConstSingletonScore self) -> std::string"""
9408  return _IMP_kernel._ConstSingletonScore___str__(self)
9409 
9410  def __repr__(self):
9411  r"""__repr__(_ConstSingletonScore self) -> std::string"""
9412  return _IMP_kernel._ConstSingletonScore___repr__(self)
9413 
9414  @staticmethod
9415  def get_from(o):
9416  return _object_cast_to__ConstSingletonScore(o)
9417 
9418 
9419  def _get_as_binary(self):
9420  r"""_get_as_binary(_ConstSingletonScore self) -> PyObject *"""
9421  return _IMP_kernel._ConstSingletonScore__get_as_binary(self)
9422 
9423  def _set_from_binary(self, p):
9424  r"""_set_from_binary(_ConstSingletonScore self, PyObject * p)"""
9425  return _IMP_kernel._ConstSingletonScore__set_from_binary(self, p)
9426 
9427  def __getstate__(self):
9428  p = self._get_as_binary()
9429  if len(self.__dict__) > 1:
9430  d = self.__dict__.copy()
9431  del d['this']
9432  p = (d, p)
9433  return p
9434 
9435  def __setstate__(self, p):
9436  if not hasattr(self, 'this'):
9437  self.__init__()
9438  if isinstance(p, tuple):
9439  d, p = p
9440  self.__dict__.update(d)
9441  return self._set_from_binary(p)
9442 
9443 
9444  def _get_jax(self, m, indexes):
9445  value = self.get_value()
9446  # We always return `value` regardless of the JAX Model or indexes
9447  return self._wrap_jax(m, lambda jm: value)
9448 
9449 
9450 # Register _ConstSingletonScore in _IMP_kernel:
9451 _IMP_kernel._ConstSingletonScore_swigregister(_ConstSingletonScore)
9452 class _ConstPairScore(PairScore):
9453  r"""Proxy of C++ IMP::internal::_ConstPairScore class."""
9454 
9455  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
9456 
9457  def __init__(self, *args):
9458  r"""
9459  __init__(_ConstPairScore self, double v) -> _ConstPairScore
9460  __init__(_ConstPairScore self) -> _ConstPairScore
9461  """
9462  _IMP_kernel._ConstPairScore_swiginit(self, _IMP_kernel.new__ConstPairScore(*args))
9463 
9464  def get_value(self):
9465  r"""get_value(_ConstPairScore self) -> double"""
9466  return _IMP_kernel._ConstPairScore_get_value(self)
9467 
9468  def do_get_inputs(self, arg2, arg3):
9469  r"""do_get_inputs(_ConstPairScore self, Model arg2, IMP::ParticleIndexes const & arg3) -> IMP::ModelObjectsTemp"""
9470  return _IMP_kernel._ConstPairScore_do_get_inputs(self, arg2, arg3)
9471 
9472  def evaluate_indexes(self, m, p, da, lower_bound, upper_bound, all_indexes_checked=False):
9473  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"""
9474  return _IMP_kernel._ConstPairScore_evaluate_indexes(self, m, p, da, lower_bound, upper_bound, all_indexes_checked)
9475 
9476  def evaluate_indexes_scores(self, m, p, da, lower_bound, upper_bound, score, all_indexes_checked=False):
9477  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"""
9478  return _IMP_kernel._ConstPairScore_evaluate_indexes_scores(self, m, p, da, lower_bound, upper_bound, score, all_indexes_checked)
9479 
9480  def evaluate_indexes_delta(self, m, p, da, indexes, score, all_indexes_checked=False):
9481  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"""
9482  return _IMP_kernel._ConstPairScore_evaluate_indexes_delta(self, m, p, da, indexes, score, all_indexes_checked)
9483 
9484  def evaluate_if_good_indexes(self, m, p, da, max, lower_bound, upper_bound, all_indexes_checked=False):
9485  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"""
9486  return _IMP_kernel._ConstPairScore_evaluate_if_good_indexes(self, m, p, da, max, lower_bound, upper_bound, all_indexes_checked)
9487 
9488  def get_version_info(self):
9489  r"""get_version_info(_ConstPairScore self) -> VersionInfo"""
9490  return _IMP_kernel._ConstPairScore_get_version_info(self)
9491  __swig_destroy__ = _IMP_kernel.delete__ConstPairScore
9492 
9493  def __str__(self):
9494  r"""__str__(_ConstPairScore self) -> std::string"""
9495  return _IMP_kernel._ConstPairScore___str__(self)
9496 
9497  def __repr__(self):
9498  r"""__repr__(_ConstPairScore self) -> std::string"""
9499  return _IMP_kernel._ConstPairScore___repr__(self)
9500 
9501  @staticmethod
9502  def get_from(o):
9503  return _object_cast_to__ConstPairScore(o)
9504 
9505 
9506  def _get_as_binary(self):
9507  r"""_get_as_binary(_ConstPairScore self) -> PyObject *"""
9508  return _IMP_kernel._ConstPairScore__get_as_binary(self)
9509 
9510  def _set_from_binary(self, p):
9511  r"""_set_from_binary(_ConstPairScore self, PyObject * p)"""
9512  return _IMP_kernel._ConstPairScore__set_from_binary(self, p)
9513 
9514  def __getstate__(self):
9515  p = self._get_as_binary()
9516  if len(self.__dict__) > 1:
9517  d = self.__dict__.copy()
9518  del d['this']
9519  p = (d, p)
9520  return p
9521 
9522  def __setstate__(self, p):
9523  if not hasattr(self, 'this'):
9524  self.__init__()
9525  if isinstance(p, tuple):
9526  d, p = p
9527  self.__dict__.update(d)
9528  return self._set_from_binary(p)
9529 
9530 
9531  def _get_jax(self, m, indexes):
9532  value = self.get_value()
9533  # We always return `value` regardless of the JAX Model or indexes
9534  return self._wrap_jax(m, lambda jm: value)
9535 
9536 
9537 # Register _ConstPairScore in _IMP_kernel:
9538 _IMP_kernel._ConstPairScore_swigregister(_ConstPairScore)
9539 class _TrivialDecorator(Decorator):
9540  r"""Proxy of C++ IMP::internal::_TrivialDecorator class."""
9541 
9542  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
9543 
9544  def __init__(self, *args):
9545  r"""
9546  __init__(_TrivialDecorator self) -> _TrivialDecorator
9547  __init__(_TrivialDecorator self, Model m, ParticleIndex id) -> _TrivialDecorator
9548  __init__(_TrivialDecorator self, _ParticleAdaptor d) -> _TrivialDecorator
9549  """
9550  _IMP_kernel._TrivialDecorator_swiginit(self, _IMP_kernel.new__TrivialDecorator(*args))
9551 
9552  def show(self, *args):
9553  r"""show(_TrivialDecorator self, _ostream out=std::cout)"""
9554  return _IMP_kernel._TrivialDecorator_show(self, *args)
9555 
9556  @staticmethod
9557  def setup_particle(*args):
9558  r"""
9559  setup_particle(Model m, ParticleIndex pi) -> _TrivialDecorator
9560  setup_particle(_ParticleAdaptor pa) -> _TrivialDecorator
9561  """
9562  return _IMP_kernel._TrivialDecorator_setup_particle(*args)
9563 
9564  @staticmethod
9565  def get_is_setup(*args):
9566  r"""
9567  get_is_setup(_ParticleAdaptor p) -> bool
9568  get_is_setup(Model m, ParticleIndex pi) -> bool
9569  """
9570  return _IMP_kernel._TrivialDecorator_get_is_setup(*args)
9571 
9572  def add_attribute(self, *args):
9573  r"""
9574  add_attribute(_TrivialDecorator self, FloatKey k, IMP::Float v, bool opt)
9575  add_attribute(_TrivialDecorator self, FloatKey a0, IMP::Float a1)
9576  add_attribute(_TrivialDecorator self, IntKey a0, IMP::Int a1)
9577  add_attribute(_TrivialDecorator self, FloatsKey a0, IMP::Floats a1)
9578  add_attribute(_TrivialDecorator self, IntsKey a0, IMP::Ints a1)
9579  add_attribute(_TrivialDecorator self, StringKey a0, IMP::String a1)
9580  add_attribute(_TrivialDecorator self, ParticleIndexKey a0, Particle a1)
9581  add_attribute(_TrivialDecorator self, ObjectKey a0, Object a1)
9582  add_attribute(_TrivialDecorator self, SparseFloatKey a0, IMP::Float a1)
9583  add_attribute(_TrivialDecorator self, SparseIntKey a0, IMP::Int a1)
9584  add_attribute(_TrivialDecorator self, SparseStringKey a0, IMP::String a1)
9585  add_attribute(_TrivialDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
9586  """
9587  return _IMP_kernel._TrivialDecorator_add_attribute(self, *args)
9588 
9589  def get_value(self, *args):
9590  r"""
9591  get_value(_TrivialDecorator self, FloatKey a0) -> IMP::Float
9592  get_value(_TrivialDecorator self, IntKey a0) -> IMP::Int
9593  get_value(_TrivialDecorator self, FloatsKey a0) -> IMP::Floats
9594  get_value(_TrivialDecorator self, IntsKey a0) -> IMP::Ints
9595  get_value(_TrivialDecorator self, StringKey a0) -> IMP::String
9596  get_value(_TrivialDecorator self, ParticleIndexKey a0) -> Particle
9597  get_value(_TrivialDecorator self, ObjectKey a0) -> Object
9598  get_value(_TrivialDecorator self, SparseFloatKey a0) -> IMP::Float
9599  get_value(_TrivialDecorator self, SparseIntKey a0) -> IMP::Int
9600  get_value(_TrivialDecorator self, SparseStringKey a0) -> IMP::String
9601  get_value(_TrivialDecorator self, SparseParticleIndexKey a0) -> ParticleIndex
9602  """
9603  return _IMP_kernel._TrivialDecorator_get_value(self, *args)
9604 
9605  def set_value(self, *args):
9606  r"""
9607  set_value(_TrivialDecorator self, FloatKey a0, IMP::Float a1)
9608  set_value(_TrivialDecorator self, IntKey a0, IMP::Int a1)
9609  set_value(_TrivialDecorator self, FloatsKey a0, IMP::Floats a1)
9610  set_value(_TrivialDecorator self, IntsKey a0, IMP::Ints a1)
9611  set_value(_TrivialDecorator self, StringKey a0, IMP::String a1)
9612  set_value(_TrivialDecorator self, ParticleIndexKey a0, Particle a1)
9613  set_value(_TrivialDecorator self, ObjectKey a0, Object a1)
9614  set_value(_TrivialDecorator self, SparseFloatKey a0, IMP::Float a1)
9615  set_value(_TrivialDecorator self, SparseIntKey a0, IMP::Int a1)
9616  set_value(_TrivialDecorator self, SparseStringKey a0, IMP::String a1)
9617  set_value(_TrivialDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
9618  """
9619  return _IMP_kernel._TrivialDecorator_set_value(self, *args)
9620 
9621  def remove_attribute(self, *args):
9622  r"""
9623  remove_attribute(_TrivialDecorator self, FloatKey a0)
9624  remove_attribute(_TrivialDecorator self, IntKey a0)
9625  remove_attribute(_TrivialDecorator self, FloatsKey a0)
9626  remove_attribute(_TrivialDecorator self, IntsKey a0)
9627  remove_attribute(_TrivialDecorator self, StringKey a0)
9628  remove_attribute(_TrivialDecorator self, ParticleIndexKey a0)
9629  remove_attribute(_TrivialDecorator self, ObjectKey a0)
9630  remove_attribute(_TrivialDecorator self, SparseFloatKey a0)
9631  remove_attribute(_TrivialDecorator self, SparseIntKey a0)
9632  remove_attribute(_TrivialDecorator self, SparseStringKey a0)
9633  remove_attribute(_TrivialDecorator self, SparseParticleIndexKey a0)
9634  """
9635  return _IMP_kernel._TrivialDecorator_remove_attribute(self, *args)
9636 
9637  def has_attribute(self, *args):
9638  r"""
9639  has_attribute(_TrivialDecorator self, FloatKey a0) -> bool
9640  has_attribute(_TrivialDecorator self, IntKey a0) -> bool
9641  has_attribute(_TrivialDecorator self, FloatsKey a0) -> bool
9642  has_attribute(_TrivialDecorator self, IntsKey a0) -> bool
9643  has_attribute(_TrivialDecorator self, StringKey a0) -> bool
9644  has_attribute(_TrivialDecorator self, ParticleIndexKey a0) -> bool
9645  has_attribute(_TrivialDecorator self, ObjectKey a0) -> bool
9646  has_attribute(_TrivialDecorator self, SparseFloatKey a0) -> bool
9647  has_attribute(_TrivialDecorator self, SparseIntKey a0) -> bool
9648  has_attribute(_TrivialDecorator self, SparseStringKey a0) -> bool
9649  has_attribute(_TrivialDecorator self, SparseParticleIndexKey a0) -> bool
9650  """
9651  return _IMP_kernel._TrivialDecorator_has_attribute(self, *args)
9652 
9653  def get_derivative(self, a0):
9654  r"""get_derivative(_TrivialDecorator self, FloatKey a0) -> double"""
9655  return _IMP_kernel._TrivialDecorator_get_derivative(self, a0)
9656 
9657  def get_name(self):
9658  r"""get_name(_TrivialDecorator self) -> std::string"""
9659  return _IMP_kernel._TrivialDecorator_get_name(self)
9660 
9661  def clear_caches(self):
9662  r"""clear_caches(_TrivialDecorator self)"""
9663  return _IMP_kernel._TrivialDecorator_clear_caches(self)
9664 
9665  def set_name(self, a0):
9666  r"""set_name(_TrivialDecorator self, std::string a0)"""
9667  return _IMP_kernel._TrivialDecorator_set_name(self, a0)
9668 
9669  def set_check_level(self, a0):
9670  r"""set_check_level(_TrivialDecorator self, IMP::CheckLevel a0)"""
9671  return _IMP_kernel._TrivialDecorator_set_check_level(self, a0)
9672 
9673  def add_to_derivative(self, a0, a1, a2):
9674  r"""add_to_derivative(_TrivialDecorator self, FloatKey a0, double a1, DerivativeAccumulator a2)"""
9675  return _IMP_kernel._TrivialDecorator_add_to_derivative(self, a0, a1, a2)
9676 
9677  def set_is_optimized(self, a0, a1):
9678  r"""set_is_optimized(_TrivialDecorator self, FloatKey a0, bool a1)"""
9679  return _IMP_kernel._TrivialDecorator_set_is_optimized(self, a0, a1)
9680 
9681  def get_is_optimized(self, a0):
9682  r"""get_is_optimized(_TrivialDecorator self, FloatKey a0) -> bool"""
9683  return _IMP_kernel._TrivialDecorator_get_is_optimized(self, a0)
9684 
9685  def get_check_level(self):
9686  r"""get_check_level(_TrivialDecorator self) -> IMP::CheckLevel"""
9687  return _IMP_kernel._TrivialDecorator_get_check_level(self)
9688 
9689  def __eq__(self, *args):
9690  r"""
9691  __eq__(_TrivialDecorator self, _TrivialDecorator o) -> bool
9692  __eq__(_TrivialDecorator self, Particle d) -> bool
9693  """
9694  return _IMP_kernel._TrivialDecorator___eq__(self, *args)
9695 
9696  def __ne__(self, *args):
9697  r"""
9698  __ne__(_TrivialDecorator self, _TrivialDecorator o) -> bool
9699  __ne__(_TrivialDecorator self, Particle d) -> bool
9700  """
9701  return _IMP_kernel._TrivialDecorator___ne__(self, *args)
9702 
9703  def __le__(self, *args):
9704  r"""
9705  __le__(_TrivialDecorator self, _TrivialDecorator o) -> bool
9706  __le__(_TrivialDecorator self, Particle d) -> bool
9707  """
9708  return _IMP_kernel._TrivialDecorator___le__(self, *args)
9709 
9710  def __lt__(self, *args):
9711  r"""
9712  __lt__(_TrivialDecorator self, _TrivialDecorator o) -> bool
9713  __lt__(_TrivialDecorator self, Particle d) -> bool
9714  """
9715  return _IMP_kernel._TrivialDecorator___lt__(self, *args)
9716 
9717  def __ge__(self, *args):
9718  r"""
9719  __ge__(_TrivialDecorator self, _TrivialDecorator o) -> bool
9720  __ge__(_TrivialDecorator self, Particle d) -> bool
9721  """
9722  return _IMP_kernel._TrivialDecorator___ge__(self, *args)
9723 
9724  def __gt__(self, *args):
9725  r"""
9726  __gt__(_TrivialDecorator self, _TrivialDecorator o) -> bool
9727  __gt__(_TrivialDecorator self, Particle d) -> bool
9728  """
9729  return _IMP_kernel._TrivialDecorator___gt__(self, *args)
9730 
9731  def __hash__(self):
9732  r"""__hash__(_TrivialDecorator self) -> std::size_t"""
9733  return _IMP_kernel._TrivialDecorator___hash__(self)
9734 
9735  def __str__(self):
9736  r"""__str__(_TrivialDecorator self) -> std::string"""
9737  return _IMP_kernel._TrivialDecorator___str__(self)
9738 
9739  def __repr__(self):
9740  r"""__repr__(_TrivialDecorator self) -> std::string"""
9741  return _IMP_kernel._TrivialDecorator___repr__(self)
9742 
9743  def _get_as_binary(self):
9744  r"""_get_as_binary(_TrivialDecorator self) -> PyObject *"""
9745  return _IMP_kernel._TrivialDecorator__get_as_binary(self)
9746 
9747  def _set_from_binary(self, p):
9748  r"""_set_from_binary(_TrivialDecorator self, PyObject * p)"""
9749  return _IMP_kernel._TrivialDecorator__set_from_binary(self, p)
9750 
9751  def __getstate__(self):
9752  p = self._get_as_binary()
9753  if len(self.__dict__) > 1:
9754  d = self.__dict__.copy()
9755  del d['this']
9756  p = (d, p)
9757  return p
9758 
9759  def __setstate__(self, p):
9760  if not hasattr(self, 'this'):
9761  self.__init__()
9762  if isinstance(p, tuple):
9763  d, p = p
9764  self.__dict__.update(d)
9765  return self._set_from_binary(p)
9766 
9767  __swig_destroy__ = _IMP_kernel.delete__TrivialDecorator
9768 
9769 # Register _TrivialDecorator in _IMP_kernel:
9770 _IMP_kernel._TrivialDecorator_swigregister(_TrivialDecorator)
9771 class _TrivialDerivedDecorator(_TrivialDecorator):
9772  r"""Proxy of C++ IMP::internal::_TrivialDerivedDecorator class."""
9773 
9774  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
9775 
9776  def __init__(self, *args):
9777  r"""
9778  __init__(_TrivialDerivedDecorator self) -> _TrivialDerivedDecorator
9779  __init__(_TrivialDerivedDecorator self, Model m, ParticleIndex id) -> _TrivialDerivedDecorator
9780  __init__(_TrivialDerivedDecorator self, _ParticleAdaptor d) -> _TrivialDerivedDecorator
9781  """
9782  _IMP_kernel._TrivialDerivedDecorator_swiginit(self, _IMP_kernel.new__TrivialDerivedDecorator(*args))
9783 
9784  def show(self, *args):
9785  r"""show(_TrivialDerivedDecorator self, _ostream out=std::cout)"""
9786  return _IMP_kernel._TrivialDerivedDecorator_show(self, *args)
9787 
9788  @staticmethod
9789  def setup_particle(*args):
9790  r"""
9791  setup_particle(Model m, ParticleIndex pi) -> _TrivialDerivedDecorator
9792  setup_particle(_ParticleAdaptor pa) -> _TrivialDerivedDecorator
9793  """
9794  return _IMP_kernel._TrivialDerivedDecorator_setup_particle(*args)
9795 
9796  @staticmethod
9797  def get_is_setup(*args):
9798  r"""
9799  get_is_setup(_ParticleAdaptor p) -> bool
9800  get_is_setup(Model m, ParticleIndex pi) -> bool
9801  """
9802  return _IMP_kernel._TrivialDerivedDecorator_get_is_setup(*args)
9803 
9804  def add_attribute(self, *args):
9805  r"""
9806  add_attribute(_TrivialDerivedDecorator self, FloatKey k, IMP::Float v, bool opt)
9807  add_attribute(_TrivialDerivedDecorator self, FloatKey a0, IMP::Float a1)
9808  add_attribute(_TrivialDerivedDecorator self, IntKey a0, IMP::Int a1)
9809  add_attribute(_TrivialDerivedDecorator self, FloatsKey a0, IMP::Floats a1)
9810  add_attribute(_TrivialDerivedDecorator self, IntsKey a0, IMP::Ints a1)
9811  add_attribute(_TrivialDerivedDecorator self, StringKey a0, IMP::String a1)
9812  add_attribute(_TrivialDerivedDecorator self, ParticleIndexKey a0, Particle a1)
9813  add_attribute(_TrivialDerivedDecorator self, ObjectKey a0, Object a1)
9814  add_attribute(_TrivialDerivedDecorator self, SparseFloatKey a0, IMP::Float a1)
9815  add_attribute(_TrivialDerivedDecorator self, SparseIntKey a0, IMP::Int a1)
9816  add_attribute(_TrivialDerivedDecorator self, SparseStringKey a0, IMP::String a1)
9817  add_attribute(_TrivialDerivedDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
9818  """
9819  return _IMP_kernel._TrivialDerivedDecorator_add_attribute(self, *args)
9820 
9821  def get_value(self, *args):
9822  r"""
9823  get_value(_TrivialDerivedDecorator self, FloatKey a0) -> IMP::Float
9824  get_value(_TrivialDerivedDecorator self, IntKey a0) -> IMP::Int
9825  get_value(_TrivialDerivedDecorator self, FloatsKey a0) -> IMP::Floats
9826  get_value(_TrivialDerivedDecorator self, IntsKey a0) -> IMP::Ints
9827  get_value(_TrivialDerivedDecorator self, StringKey a0) -> IMP::String
9828  get_value(_TrivialDerivedDecorator self, ParticleIndexKey a0) -> Particle
9829  get_value(_TrivialDerivedDecorator self, ObjectKey a0) -> Object
9830  get_value(_TrivialDerivedDecorator self, SparseFloatKey a0) -> IMP::Float
9831  get_value(_TrivialDerivedDecorator self, SparseIntKey a0) -> IMP::Int
9832  get_value(_TrivialDerivedDecorator self, SparseStringKey a0) -> IMP::String
9833  get_value(_TrivialDerivedDecorator self, SparseParticleIndexKey a0) -> ParticleIndex
9834  """
9835  return _IMP_kernel._TrivialDerivedDecorator_get_value(self, *args)
9836 
9837  def set_value(self, *args):
9838  r"""
9839  set_value(_TrivialDerivedDecorator self, FloatKey a0, IMP::Float a1)
9840  set_value(_TrivialDerivedDecorator self, IntKey a0, IMP::Int a1)
9841  set_value(_TrivialDerivedDecorator self, FloatsKey a0, IMP::Floats a1)
9842  set_value(_TrivialDerivedDecorator self, IntsKey a0, IMP::Ints a1)
9843  set_value(_TrivialDerivedDecorator self, StringKey a0, IMP::String a1)
9844  set_value(_TrivialDerivedDecorator self, ParticleIndexKey a0, Particle a1)
9845  set_value(_TrivialDerivedDecorator self, ObjectKey a0, Object a1)
9846  set_value(_TrivialDerivedDecorator self, SparseFloatKey a0, IMP::Float a1)
9847  set_value(_TrivialDerivedDecorator self, SparseIntKey a0, IMP::Int a1)
9848  set_value(_TrivialDerivedDecorator self, SparseStringKey a0, IMP::String a1)
9849  set_value(_TrivialDerivedDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
9850  """
9851  return _IMP_kernel._TrivialDerivedDecorator_set_value(self, *args)
9852 
9853  def remove_attribute(self, *args):
9854  r"""
9855  remove_attribute(_TrivialDerivedDecorator self, FloatKey a0)
9856  remove_attribute(_TrivialDerivedDecorator self, IntKey a0)
9857  remove_attribute(_TrivialDerivedDecorator self, FloatsKey a0)
9858  remove_attribute(_TrivialDerivedDecorator self, IntsKey a0)
9859  remove_attribute(_TrivialDerivedDecorator self, StringKey a0)
9860  remove_attribute(_TrivialDerivedDecorator self, ParticleIndexKey a0)
9861  remove_attribute(_TrivialDerivedDecorator self, ObjectKey a0)
9862  remove_attribute(_TrivialDerivedDecorator self, SparseFloatKey a0)
9863  remove_attribute(_TrivialDerivedDecorator self, SparseIntKey a0)
9864  remove_attribute(_TrivialDerivedDecorator self, SparseStringKey a0)
9865  remove_attribute(_TrivialDerivedDecorator self, SparseParticleIndexKey a0)
9866  """
9867  return _IMP_kernel._TrivialDerivedDecorator_remove_attribute(self, *args)
9868 
9869  def has_attribute(self, *args):
9870  r"""
9871  has_attribute(_TrivialDerivedDecorator self, FloatKey a0) -> bool
9872  has_attribute(_TrivialDerivedDecorator self, IntKey a0) -> bool
9873  has_attribute(_TrivialDerivedDecorator self, FloatsKey a0) -> bool
9874  has_attribute(_TrivialDerivedDecorator self, IntsKey a0) -> bool
9875  has_attribute(_TrivialDerivedDecorator self, StringKey a0) -> bool
9876  has_attribute(_TrivialDerivedDecorator self, ParticleIndexKey a0) -> bool
9877  has_attribute(_TrivialDerivedDecorator self, ObjectKey a0) -> bool
9878  has_attribute(_TrivialDerivedDecorator self, SparseFloatKey a0) -> bool
9879  has_attribute(_TrivialDerivedDecorator self, SparseIntKey a0) -> bool
9880  has_attribute(_TrivialDerivedDecorator self, SparseStringKey a0) -> bool
9881  has_attribute(_TrivialDerivedDecorator self, SparseParticleIndexKey a0) -> bool
9882  """
9883  return _IMP_kernel._TrivialDerivedDecorator_has_attribute(self, *args)
9884 
9885  def get_derivative(self, a0):
9886  r"""get_derivative(_TrivialDerivedDecorator self, FloatKey a0) -> double"""
9887  return _IMP_kernel._TrivialDerivedDecorator_get_derivative(self, a0)
9888 
9889  def get_name(self):
9890  r"""get_name(_TrivialDerivedDecorator self) -> std::string"""
9891  return _IMP_kernel._TrivialDerivedDecorator_get_name(self)
9892 
9893  def clear_caches(self):
9894  r"""clear_caches(_TrivialDerivedDecorator self)"""
9895  return _IMP_kernel._TrivialDerivedDecorator_clear_caches(self)
9896 
9897  def set_name(self, a0):
9898  r"""set_name(_TrivialDerivedDecorator self, std::string a0)"""
9899  return _IMP_kernel._TrivialDerivedDecorator_set_name(self, a0)
9900 
9901  def set_check_level(self, a0):
9902  r"""set_check_level(_TrivialDerivedDecorator self, IMP::CheckLevel a0)"""
9903  return _IMP_kernel._TrivialDerivedDecorator_set_check_level(self, a0)
9904 
9905  def add_to_derivative(self, a0, a1, a2):
9906  r"""add_to_derivative(_TrivialDerivedDecorator self, FloatKey a0, double a1, DerivativeAccumulator a2)"""
9907  return _IMP_kernel._TrivialDerivedDecorator_add_to_derivative(self, a0, a1, a2)
9908 
9909  def set_is_optimized(self, a0, a1):
9910  r"""set_is_optimized(_TrivialDerivedDecorator self, FloatKey a0, bool a1)"""
9911  return _IMP_kernel._TrivialDerivedDecorator_set_is_optimized(self, a0, a1)
9912 
9913  def get_is_optimized(self, a0):
9914  r"""get_is_optimized(_TrivialDerivedDecorator self, FloatKey a0) -> bool"""
9915  return _IMP_kernel._TrivialDerivedDecorator_get_is_optimized(self, a0)
9916 
9917  def get_check_level(self):
9918  r"""get_check_level(_TrivialDerivedDecorator self) -> IMP::CheckLevel"""
9919  return _IMP_kernel._TrivialDerivedDecorator_get_check_level(self)
9920 
9921  def __eq__(self, *args):
9922  r"""
9923  __eq__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
9924  __eq__(_TrivialDerivedDecorator self, Particle d) -> bool
9925  """
9926  return _IMP_kernel._TrivialDerivedDecorator___eq__(self, *args)
9927 
9928  def __ne__(self, *args):
9929  r"""
9930  __ne__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
9931  __ne__(_TrivialDerivedDecorator self, Particle d) -> bool
9932  """
9933  return _IMP_kernel._TrivialDerivedDecorator___ne__(self, *args)
9934 
9935  def __le__(self, *args):
9936  r"""
9937  __le__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
9938  __le__(_TrivialDerivedDecorator self, Particle d) -> bool
9939  """
9940  return _IMP_kernel._TrivialDerivedDecorator___le__(self, *args)
9941 
9942  def __lt__(self, *args):
9943  r"""
9944  __lt__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
9945  __lt__(_TrivialDerivedDecorator self, Particle d) -> bool
9946  """
9947  return _IMP_kernel._TrivialDerivedDecorator___lt__(self, *args)
9948 
9949  def __ge__(self, *args):
9950  r"""
9951  __ge__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
9952  __ge__(_TrivialDerivedDecorator self, Particle d) -> bool
9953  """
9954  return _IMP_kernel._TrivialDerivedDecorator___ge__(self, *args)
9955 
9956  def __gt__(self, *args):
9957  r"""
9958  __gt__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
9959  __gt__(_TrivialDerivedDecorator self, Particle d) -> bool
9960  """
9961  return _IMP_kernel._TrivialDerivedDecorator___gt__(self, *args)
9962 
9963  def __hash__(self):
9964  r"""__hash__(_TrivialDerivedDecorator self) -> std::size_t"""
9965  return _IMP_kernel._TrivialDerivedDecorator___hash__(self)
9966 
9967  def __str__(self):
9968  r"""__str__(_TrivialDerivedDecorator self) -> std::string"""
9969  return _IMP_kernel._TrivialDerivedDecorator___str__(self)
9970 
9971  def __repr__(self):
9972  r"""__repr__(_TrivialDerivedDecorator self) -> std::string"""
9973  return _IMP_kernel._TrivialDerivedDecorator___repr__(self)
9974 
9975  def _get_as_binary(self):
9976  r"""_get_as_binary(_TrivialDerivedDecorator self) -> PyObject *"""
9977  return _IMP_kernel._TrivialDerivedDecorator__get_as_binary(self)
9978 
9979  def _set_from_binary(self, p):
9980  r"""_set_from_binary(_TrivialDerivedDecorator self, PyObject * p)"""
9981  return _IMP_kernel._TrivialDerivedDecorator__set_from_binary(self, p)
9982 
9983  def __getstate__(self):
9984  p = self._get_as_binary()
9985  if len(self.__dict__) > 1:
9986  d = self.__dict__.copy()
9987  del d['this']
9988  p = (d, p)
9989  return p
9990 
9991  def __setstate__(self, p):
9992  if not hasattr(self, 'this'):
9993  self.__init__()
9994  if isinstance(p, tuple):
9995  d, p = p
9996  self.__dict__.update(d)
9997  return self._set_from_binary(p)
9998 
9999  __swig_destroy__ = _IMP_kernel.delete__TrivialDerivedDecorator
10000 
10001 # Register _TrivialDerivedDecorator in _IMP_kernel:
10002 _IMP_kernel._TrivialDerivedDecorator_swigregister(_TrivialDerivedDecorator)
10003 class _TrivialTraitsDecorator(Decorator):
10004  r"""Proxy of C++ IMP::internal::_TrivialTraitsDecorator class."""
10005 
10006  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
10007 
10008  def get_decorator_traits(self):
10009  r"""get_decorator_traits(_TrivialTraitsDecorator self) -> StringKey"""
10010  return _IMP_kernel._TrivialTraitsDecorator_get_decorator_traits(self)
10011 
10012  @staticmethod
10013  def get_default_decorator_traits():
10014  r"""get_default_decorator_traits() -> StringKey"""
10015  return _IMP_kernel._TrivialTraitsDecorator_get_default_decorator_traits()
10016 
10017  def __init__(self, *args):
10018  r"""
10019  __init__(_TrivialTraitsDecorator self) -> _TrivialTraitsDecorator
10020  __init__(_TrivialTraitsDecorator self, Model m, ParticleIndex id, StringKey tr=get_default_key()) -> _TrivialTraitsDecorator
10021  __init__(_TrivialTraitsDecorator self, _ParticleAdaptor d, StringKey tr=get_default_key()) -> _TrivialTraitsDecorator
10022  """
10023  _IMP_kernel._TrivialTraitsDecorator_swiginit(self, _IMP_kernel.new__TrivialTraitsDecorator(*args))
10024 
10025  def show(self, *args):
10026  r"""show(_TrivialTraitsDecorator self, _ostream out=std::cout)"""
10027  return _IMP_kernel._TrivialTraitsDecorator_show(self, *args)
10028 
10029  @staticmethod
10030  def setup_particle(*args):
10031  r"""
10032  setup_particle(Model m, ParticleIndex pi, StringKey tr=IMP::internal::_TrivialTraitsDecorator::get_default_decorator_traits()) -> _TrivialTraitsDecorator
10033  setup_particle(_ParticleAdaptor d, StringKey tr=IMP::internal::_TrivialTraitsDecorator::get_default_decorator_traits()) -> _TrivialTraitsDecorator
10034  """
10035  return _IMP_kernel._TrivialTraitsDecorator_setup_particle(*args)
10036 
10037  @staticmethod
10038  def get_is_setup(*args):
10039  r"""
10040  get_is_setup(_ParticleAdaptor p, StringKey tr=get_default_key()) -> bool
10041  get_is_setup(Model m, ParticleIndex pi, StringKey k=get_default_key()) -> bool
10042  """
10043  return _IMP_kernel._TrivialTraitsDecorator_get_is_setup(*args)
10044 
10045  @staticmethod
10046  def get_default_key():
10047  r"""get_default_key() -> StringKey"""
10048  return _IMP_kernel._TrivialTraitsDecorator_get_default_key()
10049 
10050  def add_attribute(self, *args):
10051  r"""
10052  add_attribute(_TrivialTraitsDecorator self, FloatKey k, IMP::Float v, bool opt)
10053  add_attribute(_TrivialTraitsDecorator self, FloatKey a0, IMP::Float a1)
10054  add_attribute(_TrivialTraitsDecorator self, IntKey a0, IMP::Int a1)
10055  add_attribute(_TrivialTraitsDecorator self, FloatsKey a0, IMP::Floats a1)
10056  add_attribute(_TrivialTraitsDecorator self, IntsKey a0, IMP::Ints a1)
10057  add_attribute(_TrivialTraitsDecorator self, StringKey a0, IMP::String a1)
10058  add_attribute(_TrivialTraitsDecorator self, ParticleIndexKey a0, Particle a1)
10059  add_attribute(_TrivialTraitsDecorator self, ObjectKey a0, Object a1)
10060  add_attribute(_TrivialTraitsDecorator self, SparseFloatKey a0, IMP::Float a1)
10061  add_attribute(_TrivialTraitsDecorator self, SparseIntKey a0, IMP::Int a1)
10062  add_attribute(_TrivialTraitsDecorator self, SparseStringKey a0, IMP::String a1)
10063  add_attribute(_TrivialTraitsDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
10064  """
10065  return _IMP_kernel._TrivialTraitsDecorator_add_attribute(self, *args)
10066 
10067  def get_value(self, *args):
10068  r"""
10069  get_value(_TrivialTraitsDecorator self, FloatKey a0) -> IMP::Float
10070  get_value(_TrivialTraitsDecorator self, IntKey a0) -> IMP::Int
10071  get_value(_TrivialTraitsDecorator self, FloatsKey a0) -> IMP::Floats
10072  get_value(_TrivialTraitsDecorator self, IntsKey a0) -> IMP::Ints
10073  get_value(_TrivialTraitsDecorator self, StringKey a0) -> IMP::String
10074  get_value(_TrivialTraitsDecorator self, ParticleIndexKey a0) -> Particle
10075  get_value(_TrivialTraitsDecorator self, ObjectKey a0) -> Object
10076  get_value(_TrivialTraitsDecorator self, SparseFloatKey a0) -> IMP::Float
10077  get_value(_TrivialTraitsDecorator self, SparseIntKey a0) -> IMP::Int
10078  get_value(_TrivialTraitsDecorator self, SparseStringKey a0) -> IMP::String
10079  get_value(_TrivialTraitsDecorator self, SparseParticleIndexKey a0) -> ParticleIndex
10080  """
10081  return _IMP_kernel._TrivialTraitsDecorator_get_value(self, *args)
10082 
10083  def set_value(self, *args):
10084  r"""
10085  set_value(_TrivialTraitsDecorator self, FloatKey a0, IMP::Float a1)
10086  set_value(_TrivialTraitsDecorator self, IntKey a0, IMP::Int a1)
10087  set_value(_TrivialTraitsDecorator self, FloatsKey a0, IMP::Floats a1)
10088  set_value(_TrivialTraitsDecorator self, IntsKey a0, IMP::Ints a1)
10089  set_value(_TrivialTraitsDecorator self, StringKey a0, IMP::String a1)
10090  set_value(_TrivialTraitsDecorator self, ParticleIndexKey a0, Particle a1)
10091  set_value(_TrivialTraitsDecorator self, ObjectKey a0, Object a1)
10092  set_value(_TrivialTraitsDecorator self, SparseFloatKey a0, IMP::Float a1)
10093  set_value(_TrivialTraitsDecorator self, SparseIntKey a0, IMP::Int a1)
10094  set_value(_TrivialTraitsDecorator self, SparseStringKey a0, IMP::String a1)
10095  set_value(_TrivialTraitsDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
10096  """
10097  return _IMP_kernel._TrivialTraitsDecorator_set_value(self, *args)
10098 
10099  def remove_attribute(self, *args):
10100  r"""
10101  remove_attribute(_TrivialTraitsDecorator self, FloatKey a0)
10102  remove_attribute(_TrivialTraitsDecorator self, IntKey a0)
10103  remove_attribute(_TrivialTraitsDecorator self, FloatsKey a0)
10104  remove_attribute(_TrivialTraitsDecorator self, IntsKey a0)
10105  remove_attribute(_TrivialTraitsDecorator self, StringKey a0)
10106  remove_attribute(_TrivialTraitsDecorator self, ParticleIndexKey a0)
10107  remove_attribute(_TrivialTraitsDecorator self, ObjectKey a0)
10108  remove_attribute(_TrivialTraitsDecorator self, SparseFloatKey a0)
10109  remove_attribute(_TrivialTraitsDecorator self, SparseIntKey a0)
10110  remove_attribute(_TrivialTraitsDecorator self, SparseStringKey a0)
10111  remove_attribute(_TrivialTraitsDecorator self, SparseParticleIndexKey a0)
10112  """
10113  return _IMP_kernel._TrivialTraitsDecorator_remove_attribute(self, *args)
10114 
10115  def has_attribute(self, *args):
10116  r"""
10117  has_attribute(_TrivialTraitsDecorator self, FloatKey a0) -> bool
10118  has_attribute(_TrivialTraitsDecorator self, IntKey a0) -> bool
10119  has_attribute(_TrivialTraitsDecorator self, FloatsKey a0) -> bool
10120  has_attribute(_TrivialTraitsDecorator self, IntsKey a0) -> bool
10121  has_attribute(_TrivialTraitsDecorator self, StringKey a0) -> bool
10122  has_attribute(_TrivialTraitsDecorator self, ParticleIndexKey a0) -> bool
10123  has_attribute(_TrivialTraitsDecorator self, ObjectKey a0) -> bool
10124  has_attribute(_TrivialTraitsDecorator self, SparseFloatKey a0) -> bool
10125  has_attribute(_TrivialTraitsDecorator self, SparseIntKey a0) -> bool
10126  has_attribute(_TrivialTraitsDecorator self, SparseStringKey a0) -> bool
10127  has_attribute(_TrivialTraitsDecorator self, SparseParticleIndexKey a0) -> bool
10128  """
10129  return _IMP_kernel._TrivialTraitsDecorator_has_attribute(self, *args)
10130 
10131  def get_derivative(self, a0):
10132  r"""get_derivative(_TrivialTraitsDecorator self, FloatKey a0) -> double"""
10133  return _IMP_kernel._TrivialTraitsDecorator_get_derivative(self, a0)
10134 
10135  def get_name(self):
10136  r"""get_name(_TrivialTraitsDecorator self) -> std::string"""
10137  return _IMP_kernel._TrivialTraitsDecorator_get_name(self)
10138 
10139  def clear_caches(self):
10140  r"""clear_caches(_TrivialTraitsDecorator self)"""
10141  return _IMP_kernel._TrivialTraitsDecorator_clear_caches(self)
10142 
10143  def set_name(self, a0):
10144  r"""set_name(_TrivialTraitsDecorator self, std::string a0)"""
10145  return _IMP_kernel._TrivialTraitsDecorator_set_name(self, a0)
10146 
10147  def set_check_level(self, a0):
10148  r"""set_check_level(_TrivialTraitsDecorator self, IMP::CheckLevel a0)"""
10149  return _IMP_kernel._TrivialTraitsDecorator_set_check_level(self, a0)
10150 
10151  def add_to_derivative(self, a0, a1, a2):
10152  r"""add_to_derivative(_TrivialTraitsDecorator self, FloatKey a0, double a1, DerivativeAccumulator a2)"""
10153  return _IMP_kernel._TrivialTraitsDecorator_add_to_derivative(self, a0, a1, a2)
10154 
10155  def set_is_optimized(self, a0, a1):
10156  r"""set_is_optimized(_TrivialTraitsDecorator self, FloatKey a0, bool a1)"""
10157  return _IMP_kernel._TrivialTraitsDecorator_set_is_optimized(self, a0, a1)
10158 
10159  def get_is_optimized(self, a0):
10160  r"""get_is_optimized(_TrivialTraitsDecorator self, FloatKey a0) -> bool"""
10161  return _IMP_kernel._TrivialTraitsDecorator_get_is_optimized(self, a0)
10162 
10163  def get_check_level(self):
10164  r"""get_check_level(_TrivialTraitsDecorator self) -> IMP::CheckLevel"""
10165  return _IMP_kernel._TrivialTraitsDecorator_get_check_level(self)
10166 
10167  def __eq__(self, *args):
10168  r"""
10169  __eq__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
10170  __eq__(_TrivialTraitsDecorator self, Particle d) -> bool
10171  """
10172  return _IMP_kernel._TrivialTraitsDecorator___eq__(self, *args)
10173 
10174  def __ne__(self, *args):
10175  r"""
10176  __ne__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
10177  __ne__(_TrivialTraitsDecorator self, Particle d) -> bool
10178  """
10179  return _IMP_kernel._TrivialTraitsDecorator___ne__(self, *args)
10180 
10181  def __le__(self, *args):
10182  r"""
10183  __le__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
10184  __le__(_TrivialTraitsDecorator self, Particle d) -> bool
10185  """
10186  return _IMP_kernel._TrivialTraitsDecorator___le__(self, *args)
10187 
10188  def __lt__(self, *args):
10189  r"""
10190  __lt__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
10191  __lt__(_TrivialTraitsDecorator self, Particle d) -> bool
10192  """
10193  return _IMP_kernel._TrivialTraitsDecorator___lt__(self, *args)
10194 
10195  def __ge__(self, *args):
10196  r"""
10197  __ge__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
10198  __ge__(_TrivialTraitsDecorator self, Particle d) -> bool
10199  """
10200  return _IMP_kernel._TrivialTraitsDecorator___ge__(self, *args)
10201 
10202  def __gt__(self, *args):
10203  r"""
10204  __gt__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
10205  __gt__(_TrivialTraitsDecorator self, Particle d) -> bool
10206  """
10207  return _IMP_kernel._TrivialTraitsDecorator___gt__(self, *args)
10208 
10209  def __hash__(self):
10210  r"""__hash__(_TrivialTraitsDecorator self) -> std::size_t"""
10211  return _IMP_kernel._TrivialTraitsDecorator___hash__(self)
10212 
10213  def __str__(self):
10214  r"""__str__(_TrivialTraitsDecorator self) -> std::string"""
10215  return _IMP_kernel._TrivialTraitsDecorator___str__(self)
10216 
10217  def __repr__(self):
10218  r"""__repr__(_TrivialTraitsDecorator self) -> std::string"""
10219  return _IMP_kernel._TrivialTraitsDecorator___repr__(self)
10220  __swig_destroy__ = _IMP_kernel.delete__TrivialTraitsDecorator
10221 
10222 # Register _TrivialTraitsDecorator in _IMP_kernel:
10223 _IMP_kernel._TrivialTraitsDecorator_swigregister(_TrivialTraitsDecorator)
10224 
10225 def __lshift__(*args):
10226  r"""
10227  __lshift__(_ostream out, _TrivialDecorator n) -> _ostream
10228  __lshift__(_ostream out, _TrivialDerivedDecorator n) -> _ostream
10229  __lshift__(_ostream out, _TrivialTraitsDecorator n) -> _ostream
10230  """
10231  return _IMP_kernel.__lshift__(*args)
10232 class _ConstOptimizer(Optimizer):
10233  r"""Proxy of C++ IMP::internal::_ConstOptimizer class."""
10234 
10235  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
10236 
10237  def __init__(self, *args):
10238  r"""
10239  __init__(_ConstOptimizer self, Model m) -> _ConstOptimizer
10240  __init__(_ConstOptimizer self) -> _ConstOptimizer
10241  """
10242  _IMP_kernel._ConstOptimizer_swiginit(self, _IMP_kernel.new__ConstOptimizer(*args))
10243 
10244  def do_optimize(self, max_steps):
10245  r"""do_optimize(_ConstOptimizer self, unsigned int max_steps) -> IMP::Float"""
10246  return _IMP_kernel._ConstOptimizer_do_optimize(self, max_steps)
10247 
10248  def get_version_info(self):
10249  r"""get_version_info(_ConstOptimizer self) -> VersionInfo"""
10250  return _IMP_kernel._ConstOptimizer_get_version_info(self)
10251  __swig_destroy__ = _IMP_kernel.delete__ConstOptimizer
10252 
10253  def __str__(self):
10254  r"""__str__(_ConstOptimizer self) -> std::string"""
10255  return _IMP_kernel._ConstOptimizer___str__(self)
10256 
10257  def __repr__(self):
10258  r"""__repr__(_ConstOptimizer self) -> std::string"""
10259  return _IMP_kernel._ConstOptimizer___repr__(self)
10260 
10261  @staticmethod
10262  def get_from(o):
10263  return _object_cast_to__ConstOptimizer(o)
10264 
10265 
10266  def _get_as_binary(self):
10267  r"""_get_as_binary(_ConstOptimizer self) -> PyObject *"""
10268  return _IMP_kernel._ConstOptimizer__get_as_binary(self)
10269 
10270  def _set_from_binary(self, p):
10271  r"""_set_from_binary(_ConstOptimizer self, PyObject * p)"""
10272  return _IMP_kernel._ConstOptimizer__set_from_binary(self, p)
10273 
10274  def __getstate__(self):
10275  p = self._get_as_binary()
10276  if len(self.__dict__) > 1:
10277  d = self.__dict__.copy()
10278  del d['this']
10279  p = (d, p)
10280  return p
10281 
10282  def __setstate__(self, p):
10283  if not hasattr(self, 'this'):
10284  self.__init__()
10285  if isinstance(p, tuple):
10286  d, p = p
10287  self.__dict__.update(d)
10288  return self._set_from_binary(p)
10289 
10290 
10291 # Register _ConstOptimizer in _IMP_kernel:
10292 _IMP_kernel._ConstOptimizer_swigregister(_ConstOptimizer)
10293 
10294 def get_particle(p):
10295  r"""get_particle(Particle p) -> Particle"""
10296  return _IMP_kernel.get_particle(p)
10297 
10298 def _decorator_test(p):
10299  r"""_decorator_test(Particle p)"""
10300  return _IMP_kernel._decorator_test(p)
10301 
10302 def _overloaded_decorator(*args):
10303  r"""
10304  _overloaded_decorator(_TrivialDecorator a) -> int
10305  _overloaded_decorator(_TrivialDerivedDecorator a) -> int
10306  """
10307  return _IMP_kernel._overloaded_decorator(*args)
10308 
10309 def _take_particles(*args):
10310  r"""
10311  _take_particles(IMP::Particles const & ps) -> unsigned int
10312  _take_particles(Model m, IMP::Particles const & ps) -> unsigned int
10313  _take_particles(Model m, IMP::Particles const & ps, TextOutput out) -> unsigned int
10314  """
10315  return _IMP_kernel._take_particles(*args)
10316 
10317 def _give_particles(m):
10318  r"""_give_particles(Model m) -> IMP::Particles const &"""
10319  return _IMP_kernel._give_particles(m)
10320 
10321 def _pass_particles(ps):
10322  r"""_pass_particles(IMP::Particles const & ps) -> IMP::Particles const &"""
10323  return _IMP_kernel._pass_particles(ps)
10324 
10325 def _pass_particle(ps):
10326  r"""_pass_particle(Particle ps) -> Particle"""
10327  return _IMP_kernel._pass_particle(ps)
10328 
10329 def _pass_particle_pair(pp):
10330  r"""_pass_particle_pair(IMP::ParticlePair const & pp) -> IMP::ParticlePair const &"""
10331  return _IMP_kernel._pass_particle_pair(pp)
10332 
10333 def _give_particles_copy(m):
10334  r"""_give_particles_copy(Model m) -> IMP::Particles"""
10335  return _IMP_kernel._give_particles_copy(m)
10336 
10337 def _pass_float_keys(input):
10338  r"""_pass_float_keys(IMP::FloatKeys const & input) -> IMP::FloatKeys"""
10339  return _IMP_kernel._pass_float_keys(input)
10340 
10341 def _pass(*args):
10342  r"""
10343  _pass(IMP::Particles const & p) -> IMP::Particles const
10344  _pass(IMP::Restraints const & p) -> IMP::Restraints const &
10345  """
10346  return _IMP_kernel._pass(*args)
10347 
10348 def _pass_decorators(p):
10349  r"""_pass_decorators(IMP::internal::_TrivialDecorators const & p) -> IMP::internal::_TrivialDecorators const &"""
10350  return _IMP_kernel._pass_decorators(p)
10351 
10352 def _pass_decorator_traits(p):
10353  r"""_pass_decorator_traits(IMP::internal::_TrivialTraitsDecorators const & p) -> IMP::internal::_TrivialTraitsDecorators const &"""
10354  return _IMP_kernel._pass_decorator_traits(p)
10355 
10356 def _pass_particle_pairs(p):
10357  r"""_pass_particle_pairs(IMP::ParticlePairsTemp const & p) -> IMP::ParticlePairsTemp"""
10358  return _IMP_kernel._pass_particle_pairs(p)
10359 
10360 def _pass_particle_index_pairs(p):
10361  r"""_pass_particle_index_pairs(IMP::ParticleIndexPairs const & p) -> IMP::ParticleIndexPairs"""
10362  return _IMP_kernel._pass_particle_index_pairs(p)
10363 
10364 def _pass_model_objects(p):
10365  r"""_pass_model_objects(IMP::ModelObjectsTemp const & p) -> IMP::ModelObjectsTemp"""
10366  return _IMP_kernel._pass_model_objects(p)
10367 
10368 def _pass_particles_temps(ps):
10369  r"""_pass_particles_temps(IMP::ParticlesTemps const & ps) -> IMP::ParticlesTemps"""
10370  return _IMP_kernel._pass_particles_temps(ps)
10371 
10372 def _test_overload(*args):
10373  r"""
10374  _test_overload(IMP::Particles const & ps) -> int
10375  _test_overload(IMP::Restraints const & ps) -> int
10376  """
10377  return _IMP_kernel._test_overload(*args)
10378 
10379 def _get_range(m, k):
10380  r"""_get_range(Model m, FloatKey k) -> IMP::FloatRange"""
10381  return _IMP_kernel._get_range(m, k)
10382 
10383 def _create_particles_from_pdb(name, m):
10384  r"""_create_particles_from_pdb(std::string name, Model m) -> IMP::ParticleIndexes"""
10385  return _IMP_kernel._create_particles_from_pdb(name, m)
10386 class _LogPairScore(PairScore):
10387  r"""Proxy of C++ IMP::internal::_LogPairScore class."""
10388 
10389  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
10390  __repr__ = _swig_repr
10391 
10392  def __init__(self):
10393  r"""__init__(_LogPairScore self) -> _LogPairScore"""
10394  _IMP_kernel._LogPairScore_swiginit(self, _IMP_kernel.new__LogPairScore())
10395 
10396  def do_get_inputs(self, arg2, arg3):
10397  r"""do_get_inputs(_LogPairScore self, Model arg2, IMP::ParticleIndexes const & arg3) -> IMP::ModelObjectsTemp"""
10398  return _IMP_kernel._LogPairScore_do_get_inputs(self, arg2, arg3)
10399 
10400  def evaluate_indexes(self, m, p, da, lower_bound, upper_bound, all_indexes_checked=False):
10401  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"""
10402  return _IMP_kernel._LogPairScore_evaluate_indexes(self, m, p, da, lower_bound, upper_bound, all_indexes_checked)
10403 
10404  def evaluate_indexes_scores(self, m, p, da, lower_bound, upper_bound, score, all_indexes_checked=False):
10405  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"""
10406  return _IMP_kernel._LogPairScore_evaluate_indexes_scores(self, m, p, da, lower_bound, upper_bound, score, all_indexes_checked)
10407 
10408  def evaluate_indexes_delta(self, m, p, da, indexes, score, all_indexes_checked=False):
10409  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"""
10410  return _IMP_kernel._LogPairScore_evaluate_indexes_delta(self, m, p, da, indexes, score, all_indexes_checked)
10411 
10412  def evaluate_if_good_indexes(self, m, p, da, max, lower_bound, upper_bound, all_indexes_checked=False):
10413  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"""
10414  return _IMP_kernel._LogPairScore_evaluate_if_good_indexes(self, m, p, da, max, lower_bound, upper_bound, all_indexes_checked)
10415 
10416  def get_version_info(self):
10417  r"""get_version_info(_LogPairScore self) -> VersionInfo"""
10418  return _IMP_kernel._LogPairScore_get_version_info(self)
10419  __swig_destroy__ = _IMP_kernel.delete__LogPairScore
10420 
10421  def get_particle_pairs(self):
10422  r"""get_particle_pairs(_LogPairScore self) -> IMP::ParticlePairsTemp"""
10423  return _IMP_kernel._LogPairScore_get_particle_pairs(self)
10424 
10425  def clear(self):
10426  r"""clear(_LogPairScore self)"""
10427  return _IMP_kernel._LogPairScore_clear(self)
10428 
10429  def get_contains(self, pp):
10430  r"""get_contains(_LogPairScore self, IMP::ParticlePair const & pp) -> bool"""
10431  return _IMP_kernel._LogPairScore_get_contains(self, pp)
10432 
10433 # Register _LogPairScore in _IMP_kernel:
10434 _IMP_kernel._LogPairScore_swigregister(_LogPairScore)
10435 
10436 def _overloaded_particles(*args):
10437  r"""
10438  _overloaded_particles(Particle arg1)
10439  _overloaded_particles(IMP::Particles const & arg1)
10440  _overloaded_particles(IMP::ParticlesTemp const & arg1)
10441  _overloaded_particles(Model arg1, IMP::ParticleIndexes const & arg2)
10442  _overloaded_particles(IMP::internal::_TrivialDecorators const & arg1)
10443  _overloaded_particles(_TrivialDecorator arg1)
10444  """
10445  return _IMP_kernel._overloaded_particles(*args)
10446 class _ImplicitParticles(object):
10447  r"""Proxy of C++ IMP::internal::_ImplicitParticles class."""
10448 
10449  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
10450  __repr__ = _swig_repr
10451 
10452  def __init__(self, *args):
10453  r"""
10454  __init__(_ImplicitParticles self, Particle arg2) -> _ImplicitParticles
10455  __init__(_ImplicitParticles self, IMP::Particles const & arg2) -> _ImplicitParticles
10456  __init__(_ImplicitParticles self, IMP::ParticlesTemp const & arg2) -> _ImplicitParticles
10457  __init__(_ImplicitParticles self, Model arg2, IMP::ParticleIndexes const & arg3) -> _ImplicitParticles
10458  __init__(_ImplicitParticles self, IMP::internal::_TrivialDecorators const & arg2) -> _ImplicitParticles
10459  __init__(_ImplicitParticles self, _TrivialDecorator arg2) -> _ImplicitParticles
10460  """
10461  _IMP_kernel._ImplicitParticles_swiginit(self, _IMP_kernel.new__ImplicitParticles(*args))
10462  __swig_destroy__ = _IMP_kernel.delete__ImplicitParticles
10463 
10464 # Register _ImplicitParticles in _IMP_kernel:
10465 _IMP_kernel._ImplicitParticles_swigregister(_ImplicitParticles)
10466 
10467 def _implicit_particles(arg1):
10468  r"""_implicit_particles(_ImplicitParticles arg1)"""
10469  return _IMP_kernel._implicit_particles(arg1)
10470 
10471 def _take_particle_adaptor(pa):
10472  r"""_take_particle_adaptor(_ParticleAdaptor pa) -> ParticleIndex"""
10473  return _IMP_kernel._take_particle_adaptor(pa)
10474 
10475 def _take_particle_indexes_adaptor(pa):
10476  r"""_take_particle_indexes_adaptor(_ParticleIndexesAdaptor pa) -> IMP::ParticleIndexes"""
10477  return _IMP_kernel._take_particle_indexes_adaptor(pa)
10478 class Vector1D(_VectorBase1D):
10479  r"""Proxy of C++ IMP::VectorD< 1 > class."""
10480 
10481  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
10482 
10483  def get_unit_vector(self):
10484  r"""get_unit_vector(Vector1D self) -> Vector1D"""
10485  return _IMP_kernel.Vector1D_get_unit_vector(self)
10486 
10487  def __truediv__(self, *args):
10488  return _IMP_kernel.Vector1D___truediv__(self, *args)
10489  __div__ = __truediv__
10490 
10491 
10492 
10493  def __neg__(self):
10494  r"""__neg__(Vector1D self) -> Vector1D"""
10495  return _IMP_kernel.Vector1D___neg__(self)
10496 
10497  def __sub__(self, o):
10498  r"""__sub__(Vector1D self, Vector1D o) -> Vector1D"""
10499  return _IMP_kernel.Vector1D___sub__(self, o)
10500 
10501  def __add__(self, ret):
10502  r"""__add__(Vector1D self, Vector1D ret) -> Vector1D"""
10503  return _IMP_kernel.Vector1D___add__(self, ret)
10504 
10505  def __mul__(self, *args):
10506  r"""
10507  __mul__(Vector1D self, double s) -> Vector1D
10508  __mul__(Vector1D self, Vector1D o) -> double
10509  """
10510  return _IMP_kernel.Vector1D___mul__(self, *args)
10511 
10512  def __init__(self, *args):
10513  r"""
10514  __init__(Vector1D self, IMP::Floats const & f) -> Vector1D
10515  __init__(Vector1D self) -> Vector1D
10516  __init__(Vector1D self, double x) -> Vector1D
10517  """
10518  _IMP_kernel.Vector1D_swiginit(self, _IMP_kernel.new_Vector1D(*args))
10519 
10520  def __iadd__(self, *args):
10521  _IMP_kernel.Vector1D___iadd__(self, *args)
10522  return self
10523 
10524 
10525 
10526  def __imul__(self, *args):
10527  _IMP_kernel.Vector1D___imul__(self, *args)
10528  return self
10529 
10530 
10531 
10532  def __idiv__(self, *args):
10533  _IMP_kernel.Vector1D___idiv__(self, *args)
10534  return self
10535 
10536 
10537 
10538  def __isub__(self, *args):
10539  _IMP_kernel.Vector1D___isub__(self, *args)
10540  return self
10541 
10542 
10543 
10544  def __len__(self):
10545  r"""__len__(Vector1D self) -> unsigned int"""
10546  return _IMP_kernel.Vector1D___len__(self)
10547 
10548  def __rmul__(self, f):
10549  r"""__rmul__(Vector1D self, double f) -> Vector1D"""
10550  return _IMP_kernel.Vector1D___rmul__(self, f)
10551 
10552  def __str__(self):
10553  r"""__str__(Vector1D self) -> std::string"""
10554  return _IMP_kernel.Vector1D___str__(self)
10555 
10556  def __repr__(self):
10557  r"""__repr__(Vector1D self) -> std::string"""
10558  return _IMP_kernel.Vector1D___repr__(self)
10559 
10560  def __cmp__(self, arg2):
10561  r"""__cmp__(Vector1D self, Vector1D arg2) -> int"""
10562  return _IMP_kernel.Vector1D___cmp__(self, arg2)
10563 
10564  def __eq__(self, arg2):
10565  r"""__eq__(Vector1D self, Vector1D arg2) -> bool"""
10566  return _IMP_kernel.Vector1D___eq__(self, arg2)
10567 
10568  __truediv__ = __div__
10569  __itruediv__ = __idiv__
10570 
10571 
10572  def _get_as_binary(self):
10573  r"""_get_as_binary(Vector1D self) -> PyObject *"""
10574  return _IMP_kernel.Vector1D__get_as_binary(self)
10575 
10576  def _set_from_binary(self, p):
10577  r"""_set_from_binary(Vector1D self, PyObject * p)"""
10578  return _IMP_kernel.Vector1D__set_from_binary(self, p)
10579 
10580  def __getstate__(self):
10581  p = self._get_as_binary()
10582  if len(self.__dict__) > 1:
10583  d = self.__dict__.copy()
10584  del d['this']
10585  p = (d, p)
10586  return p
10587 
10588  def __setstate__(self, p):
10589  if not hasattr(self, 'this'):
10590  self.__init__()
10591  if isinstance(p, tuple):
10592  d, p = p
10593  self.__dict__.update(d)
10594  return self._set_from_binary(p)
10595 
10596 
10597  def __getitem__(self, index):
10598  if isinstance(index, slice):
10599  return [self[i] for i in range(*index.indices(len(self)))]
10600  else:
10601  return _IMP_kernel.Vector1D___getitem__(self, index)
10602 
10603 
10604 
10605  def __setitem__(self, index, val):
10606  if isinstance(index, slice):
10607  if not hasattr(val, '__iter__'):
10608  raise TypeError("must assign iterable to extended slice")
10609  inds = range(*index.indices(len(self)))
10610  if len(inds) != len(val):
10611  raise ValueError(
10612  "attempt to assign sequence of size %d "
10613  "to extended slice of size %d" % (len(val), len(inds)))
10614  for ind, v in zip(inds, val):
10615  self[ind] = v
10616  else:
10617  return _IMP_kernel.Vector1D___setitem__(self, index, val)
10618 
10619 
10620  __swig_destroy__ = _IMP_kernel.delete_Vector1D
10621 
10622 # Register Vector1D in _IMP_kernel:
10623 _IMP_kernel.Vector1D_swigregister(Vector1D)
10624 class Vector2D(_VectorBase2D):
10625  r"""Proxy of C++ IMP::VectorD< 2 > class."""
10626 
10627  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
10628 
10629  def get_unit_vector(self):
10630  r"""get_unit_vector(Vector2D self) -> Vector2D"""
10631  return _IMP_kernel.Vector2D_get_unit_vector(self)
10632 
10633  def __truediv__(self, *args):
10634  return _IMP_kernel.Vector2D___truediv__(self, *args)
10635  __div__ = __truediv__
10636 
10637 
10638 
10639  def __neg__(self):
10640  r"""__neg__(Vector2D self) -> Vector2D"""
10641  return _IMP_kernel.Vector2D___neg__(self)
10642 
10643  def __sub__(self, o):
10644  r"""__sub__(Vector2D self, Vector2D o) -> Vector2D"""
10645  return _IMP_kernel.Vector2D___sub__(self, o)
10646 
10647  def __add__(self, ret):
10648  r"""__add__(Vector2D self, Vector2D ret) -> Vector2D"""
10649  return _IMP_kernel.Vector2D___add__(self, ret)
10650 
10651  def __mul__(self, *args):
10652  r"""
10653  __mul__(Vector2D self, double s) -> Vector2D
10654  __mul__(Vector2D self, Vector2D o) -> double
10655  """
10656  return _IMP_kernel.Vector2D___mul__(self, *args)
10657 
10658  def __init__(self, *args):
10659  r"""
10660  __init__(Vector2D self, IMP::Floats const & f) -> Vector2D
10661  __init__(Vector2D self) -> Vector2D
10662  __init__(Vector2D self, double x, double y) -> Vector2D
10663  """
10664  _IMP_kernel.Vector2D_swiginit(self, _IMP_kernel.new_Vector2D(*args))
10665 
10666  def __iadd__(self, *args):
10667  _IMP_kernel.Vector2D___iadd__(self, *args)
10668  return self
10669 
10670 
10671 
10672  def __imul__(self, *args):
10673  _IMP_kernel.Vector2D___imul__(self, *args)
10674  return self
10675 
10676 
10677 
10678  def __idiv__(self, *args):
10679  _IMP_kernel.Vector2D___idiv__(self, *args)
10680  return self
10681 
10682 
10683 
10684  def __isub__(self, *args):
10685  _IMP_kernel.Vector2D___isub__(self, *args)
10686  return self
10687 
10688 
10689 
10690  def __len__(self):
10691  r"""__len__(Vector2D self) -> unsigned int"""
10692  return _IMP_kernel.Vector2D___len__(self)
10693 
10694  def __rmul__(self, f):
10695  r"""__rmul__(Vector2D self, double f) -> Vector2D"""
10696  return _IMP_kernel.Vector2D___rmul__(self, f)
10697 
10698  def __str__(self):
10699  r"""__str__(Vector2D self) -> std::string"""
10700  return _IMP_kernel.Vector2D___str__(self)
10701 
10702  def __repr__(self):
10703  r"""__repr__(Vector2D self) -> std::string"""
10704  return _IMP_kernel.Vector2D___repr__(self)
10705 
10706  def __cmp__(self, arg2):
10707  r"""__cmp__(Vector2D self, Vector2D arg2) -> int"""
10708  return _IMP_kernel.Vector2D___cmp__(self, arg2)
10709 
10710  def __eq__(self, arg2):
10711  r"""__eq__(Vector2D self, Vector2D arg2) -> bool"""
10712  return _IMP_kernel.Vector2D___eq__(self, arg2)
10713 
10714  __truediv__ = __div__
10715  __itruediv__ = __idiv__
10716 
10717 
10718  def _get_as_binary(self):
10719  r"""_get_as_binary(Vector2D self) -> PyObject *"""
10720  return _IMP_kernel.Vector2D__get_as_binary(self)
10721 
10722  def _set_from_binary(self, p):
10723  r"""_set_from_binary(Vector2D self, PyObject * p)"""
10724  return _IMP_kernel.Vector2D__set_from_binary(self, p)
10725 
10726  def __getstate__(self):
10727  p = self._get_as_binary()
10728  if len(self.__dict__) > 1:
10729  d = self.__dict__.copy()
10730  del d['this']
10731  p = (d, p)
10732  return p
10733 
10734  def __setstate__(self, p):
10735  if not hasattr(self, 'this'):
10736  self.__init__()
10737  if isinstance(p, tuple):
10738  d, p = p
10739  self.__dict__.update(d)
10740  return self._set_from_binary(p)
10741 
10742 
10743  def __getitem__(self, index):
10744  if isinstance(index, slice):
10745  return [self[i] for i in range(*index.indices(len(self)))]
10746  else:
10747  return _IMP_kernel.Vector2D___getitem__(self, index)
10748 
10749 
10750 
10751  def __setitem__(self, index, val):
10752  if isinstance(index, slice):
10753  if not hasattr(val, '__iter__'):
10754  raise TypeError("must assign iterable to extended slice")
10755  inds = range(*index.indices(len(self)))
10756  if len(inds) != len(val):
10757  raise ValueError(
10758  "attempt to assign sequence of size %d "
10759  "to extended slice of size %d" % (len(val), len(inds)))
10760  for ind, v in zip(inds, val):
10761  self[ind] = v
10762  else:
10763  return _IMP_kernel.Vector2D___setitem__(self, index, val)
10764 
10765 
10766  __swig_destroy__ = _IMP_kernel.delete_Vector2D
10767 
10768 # Register Vector2D in _IMP_kernel:
10769 _IMP_kernel.Vector2D_swigregister(Vector2D)
10770 class Vector3D(_VectorBase3D):
10771  r"""Proxy of C++ IMP::VectorD< 3 > class."""
10772 
10773  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
10774 
10775  def get_unit_vector(self):
10776  r"""get_unit_vector(Vector3D self) -> Vector3D"""
10777  return _IMP_kernel.Vector3D_get_unit_vector(self)
10778 
10779  def __truediv__(self, *args):
10780  return _IMP_kernel.Vector3D___truediv__(self, *args)
10781  __div__ = __truediv__
10782 
10783 
10784 
10785  def __neg__(self):
10786  r"""__neg__(Vector3D self) -> Vector3D"""
10787  return _IMP_kernel.Vector3D___neg__(self)
10788 
10789  def __sub__(self, o):
10790  r"""__sub__(Vector3D self, Vector3D o) -> Vector3D"""
10791  return _IMP_kernel.Vector3D___sub__(self, o)
10792 
10793  def __add__(self, ret):
10794  r"""__add__(Vector3D self, Vector3D ret) -> Vector3D"""
10795  return _IMP_kernel.Vector3D___add__(self, ret)
10796 
10797  def __mul__(self, *args):
10798  r"""
10799  __mul__(Vector3D self, double s) -> Vector3D
10800  __mul__(Vector3D self, Vector3D o) -> double
10801  """
10802  return _IMP_kernel.Vector3D___mul__(self, *args)
10803 
10804  def __init__(self, *args):
10805  r"""
10806  __init__(Vector3D self, IMP::Floats const & f) -> Vector3D
10807  __init__(Vector3D self) -> Vector3D
10808  __init__(Vector3D self, double x, double y, double z) -> Vector3D
10809  """
10810  _IMP_kernel.Vector3D_swiginit(self, _IMP_kernel.new_Vector3D(*args))
10811 
10812  def __iadd__(self, *args):
10813  _IMP_kernel.Vector3D___iadd__(self, *args)
10814  return self
10815 
10816 
10817 
10818  def __imul__(self, *args):
10819  _IMP_kernel.Vector3D___imul__(self, *args)
10820  return self
10821 
10822 
10823 
10824  def __idiv__(self, *args):
10825  _IMP_kernel.Vector3D___idiv__(self, *args)
10826  return self
10827 
10828 
10829 
10830  def __isub__(self, *args):
10831  _IMP_kernel.Vector3D___isub__(self, *args)
10832  return self
10833 
10834 
10835 
10836  def __len__(self):
10837  r"""__len__(Vector3D self) -> unsigned int"""
10838  return _IMP_kernel.Vector3D___len__(self)
10839 
10840  def __rmul__(self, f):
10841  r"""__rmul__(Vector3D self, double f) -> Vector3D"""
10842  return _IMP_kernel.Vector3D___rmul__(self, f)
10843 
10844  def __str__(self):
10845  r"""__str__(Vector3D self) -> std::string"""
10846  return _IMP_kernel.Vector3D___str__(self)
10847 
10848  def __repr__(self):
10849  r"""__repr__(Vector3D self) -> std::string"""
10850  return _IMP_kernel.Vector3D___repr__(self)
10851 
10852  def __cmp__(self, arg2):
10853  r"""__cmp__(Vector3D self, Vector3D arg2) -> int"""
10854  return _IMP_kernel.Vector3D___cmp__(self, arg2)
10855 
10856  def __eq__(self, arg2):
10857  r"""__eq__(Vector3D self, Vector3D arg2) -> bool"""
10858  return _IMP_kernel.Vector3D___eq__(self, arg2)
10859 
10860  __truediv__ = __div__
10861  __itruediv__ = __idiv__
10862 
10863 
10864  def _get_as_binary(self):
10865  r"""_get_as_binary(Vector3D self) -> PyObject *"""
10866  return _IMP_kernel.Vector3D__get_as_binary(self)
10867 
10868  def _set_from_binary(self, p):
10869  r"""_set_from_binary(Vector3D self, PyObject * p)"""
10870  return _IMP_kernel.Vector3D__set_from_binary(self, p)
10871 
10872  def __getstate__(self):
10873  p = self._get_as_binary()
10874  if len(self.__dict__) > 1:
10875  d = self.__dict__.copy()
10876  del d['this']
10877  p = (d, p)
10878  return p
10879 
10880  def __setstate__(self, p):
10881  if not hasattr(self, 'this'):
10882  self.__init__()
10883  if isinstance(p, tuple):
10884  d, p = p
10885  self.__dict__.update(d)
10886  return self._set_from_binary(p)
10887 
10888 
10889  def __getitem__(self, index):
10890  if isinstance(index, slice):
10891  return [self[i] for i in range(*index.indices(len(self)))]
10892  else:
10893  return _IMP_kernel.Vector3D___getitem__(self, index)
10894 
10895 
10896 
10897  def __setitem__(self, index, val):
10898  if isinstance(index, slice):
10899  if not hasattr(val, '__iter__'):
10900  raise TypeError("must assign iterable to extended slice")
10901  inds = range(*index.indices(len(self)))
10902  if len(inds) != len(val):
10903  raise ValueError(
10904  "attempt to assign sequence of size %d "
10905  "to extended slice of size %d" % (len(val), len(inds)))
10906  for ind, v in zip(inds, val):
10907  self[ind] = v
10908  else:
10909  return _IMP_kernel.Vector3D___setitem__(self, index, val)
10910 
10911 
10912  __swig_destroy__ = _IMP_kernel.delete_Vector3D
10913 
10914 # Register Vector3D in _IMP_kernel:
10915 _IMP_kernel.Vector3D_swigregister(Vector3D)
10916 class Vector4D(_VectorBase4D):
10917  r"""Proxy of C++ IMP::VectorD< 4 > class."""
10918 
10919  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
10920 
10921  def get_unit_vector(self):
10922  r"""get_unit_vector(Vector4D self) -> Vector4D"""
10923  return _IMP_kernel.Vector4D_get_unit_vector(self)
10924 
10925  def __truediv__(self, *args):
10926  return _IMP_kernel.Vector4D___truediv__(self, *args)
10927  __div__ = __truediv__
10928 
10929 
10930 
10931  def __neg__(self):
10932  r"""__neg__(Vector4D self) -> Vector4D"""
10933  return _IMP_kernel.Vector4D___neg__(self)
10934 
10935  def __sub__(self, o):
10936  r"""__sub__(Vector4D self, Vector4D o) -> Vector4D"""
10937  return _IMP_kernel.Vector4D___sub__(self, o)
10938 
10939  def __add__(self, ret):
10940  r"""__add__(Vector4D self, Vector4D ret) -> Vector4D"""
10941  return _IMP_kernel.Vector4D___add__(self, ret)
10942 
10943  def __mul__(self, *args):
10944  r"""
10945  __mul__(Vector4D self, double s) -> Vector4D
10946  __mul__(Vector4D self, Vector4D o) -> double
10947  """
10948  return _IMP_kernel.Vector4D___mul__(self, *args)
10949 
10950  def __init__(self, *args):
10951  r"""
10952  __init__(Vector4D self, IMP::Floats const & f) -> Vector4D
10953  __init__(Vector4D self) -> Vector4D
10954  __init__(Vector4D self, double x0, double x1, double x2, double x3) -> Vector4D
10955  """
10956  _IMP_kernel.Vector4D_swiginit(self, _IMP_kernel.new_Vector4D(*args))
10957 
10958  def __iadd__(self, *args):
10959  _IMP_kernel.Vector4D___iadd__(self, *args)
10960  return self
10961 
10962 
10963 
10964  def __imul__(self, *args):
10965  _IMP_kernel.Vector4D___imul__(self, *args)
10966  return self
10967 
10968 
10969 
10970  def __idiv__(self, *args):
10971  _IMP_kernel.Vector4D___idiv__(self, *args)
10972  return self
10973 
10974 
10975 
10976  def __isub__(self, *args):
10977  _IMP_kernel.Vector4D___isub__(self, *args)
10978  return self
10979 
10980 
10981 
10982  def __len__(self):
10983  r"""__len__(Vector4D self) -> unsigned int"""
10984  return _IMP_kernel.Vector4D___len__(self)
10985 
10986  def __rmul__(self, f):
10987  r"""__rmul__(Vector4D self, double f) -> Vector4D"""
10988  return _IMP_kernel.Vector4D___rmul__(self, f)
10989 
10990  def __str__(self):
10991  r"""__str__(Vector4D self) -> std::string"""
10992  return _IMP_kernel.Vector4D___str__(self)
10993 
10994  def __repr__(self):
10995  r"""__repr__(Vector4D self) -> std::string"""
10996  return _IMP_kernel.Vector4D___repr__(self)
10997 
10998  def __cmp__(self, arg2):
10999  r"""__cmp__(Vector4D self, Vector4D arg2) -> int"""
11000  return _IMP_kernel.Vector4D___cmp__(self, arg2)
11001 
11002  def __eq__(self, arg2):
11003  r"""__eq__(Vector4D self, Vector4D arg2) -> bool"""
11004  return _IMP_kernel.Vector4D___eq__(self, arg2)
11005 
11006  __truediv__ = __div__
11007  __itruediv__ = __idiv__
11008 
11009 
11010  def _get_as_binary(self):
11011  r"""_get_as_binary(Vector4D self) -> PyObject *"""
11012  return _IMP_kernel.Vector4D__get_as_binary(self)
11013 
11014  def _set_from_binary(self, p):
11015  r"""_set_from_binary(Vector4D self, PyObject * p)"""
11016  return _IMP_kernel.Vector4D__set_from_binary(self, p)
11017 
11018  def __getstate__(self):
11019  p = self._get_as_binary()
11020  if len(self.__dict__) > 1:
11021  d = self.__dict__.copy()
11022  del d['this']
11023  p = (d, p)
11024  return p
11025 
11026  def __setstate__(self, p):
11027  if not hasattr(self, 'this'):
11028  self.__init__()
11029  if isinstance(p, tuple):
11030  d, p = p
11031  self.__dict__.update(d)
11032  return self._set_from_binary(p)
11033 
11034 
11035  def __getitem__(self, index):
11036  if isinstance(index, slice):
11037  return [self[i] for i in range(*index.indices(len(self)))]
11038  else:
11039  return _IMP_kernel.Vector4D___getitem__(self, index)
11040 
11041 
11042 
11043  def __setitem__(self, index, val):
11044  if isinstance(index, slice):
11045  if not hasattr(val, '__iter__'):
11046  raise TypeError("must assign iterable to extended slice")
11047  inds = range(*index.indices(len(self)))
11048  if len(inds) != len(val):
11049  raise ValueError(
11050  "attempt to assign sequence of size %d "
11051  "to extended slice of size %d" % (len(val), len(inds)))
11052  for ind, v in zip(inds, val):
11053  self[ind] = v
11054  else:
11055  return _IMP_kernel.Vector4D___setitem__(self, index, val)
11056 
11057 
11058  __swig_destroy__ = _IMP_kernel.delete_Vector4D
11059 
11060 # Register Vector4D in _IMP_kernel:
11061 _IMP_kernel.Vector4D_swigregister(Vector4D)
11062 class Vector5D(_VectorBase5D):
11063  r"""Proxy of C++ IMP::VectorD< 5 > class."""
11064 
11065  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
11066 
11067  def get_unit_vector(self):
11068  r"""get_unit_vector(Vector5D self) -> Vector5D"""
11069  return _IMP_kernel.Vector5D_get_unit_vector(self)
11070 
11071  def __truediv__(self, *args):
11072  return _IMP_kernel.Vector5D___truediv__(self, *args)
11073  __div__ = __truediv__
11074 
11075 
11076 
11077  def __neg__(self):
11078  r"""__neg__(Vector5D self) -> Vector5D"""
11079  return _IMP_kernel.Vector5D___neg__(self)
11080 
11081  def __sub__(self, o):
11082  r"""__sub__(Vector5D self, Vector5D o) -> Vector5D"""
11083  return _IMP_kernel.Vector5D___sub__(self, o)
11084 
11085  def __add__(self, ret):
11086  r"""__add__(Vector5D self, Vector5D ret) -> Vector5D"""
11087  return _IMP_kernel.Vector5D___add__(self, ret)
11088 
11089  def __mul__(self, *args):
11090  r"""
11091  __mul__(Vector5D self, double s) -> Vector5D
11092  __mul__(Vector5D self, Vector5D o) -> double
11093  """
11094  return _IMP_kernel.Vector5D___mul__(self, *args)
11095 
11096  def __init__(self, *args):
11097  r"""
11098  __init__(Vector5D self, IMP::Floats const & f) -> Vector5D
11099  __init__(Vector5D self) -> Vector5D
11100  __init__(Vector5D self, double x0, double x1, double x2, double x3, double x4) -> Vector5D
11101  """
11102  _IMP_kernel.Vector5D_swiginit(self, _IMP_kernel.new_Vector5D(*args))
11103 
11104  def __iadd__(self, *args):
11105  _IMP_kernel.Vector5D___iadd__(self, *args)
11106  return self
11107 
11108 
11109 
11110  def __imul__(self, *args):
11111  _IMP_kernel.Vector5D___imul__(self, *args)
11112  return self
11113 
11114 
11115 
11116  def __idiv__(self, *args):
11117  _IMP_kernel.Vector5D___idiv__(self, *args)
11118  return self
11119 
11120 
11121 
11122  def __isub__(self, *args):
11123  _IMP_kernel.Vector5D___isub__(self, *args)
11124  return self
11125 
11126 
11127 
11128  def __len__(self):
11129  r"""__len__(Vector5D self) -> unsigned int"""
11130  return _IMP_kernel.Vector5D___len__(self)
11131 
11132  def __rmul__(self, f):
11133  r"""__rmul__(Vector5D self, double f) -> Vector5D"""
11134  return _IMP_kernel.Vector5D___rmul__(self, f)
11135 
11136  def __str__(self):
11137  r"""__str__(Vector5D self) -> std::string"""
11138  return _IMP_kernel.Vector5D___str__(self)
11139 
11140  def __repr__(self):
11141  r"""__repr__(Vector5D self) -> std::string"""
11142  return _IMP_kernel.Vector5D___repr__(self)
11143 
11144  def __cmp__(self, arg2):
11145  r"""__cmp__(Vector5D self, Vector5D arg2) -> int"""
11146  return _IMP_kernel.Vector5D___cmp__(self, arg2)
11147 
11148  def __eq__(self, arg2):
11149  r"""__eq__(Vector5D self, Vector5D arg2) -> bool"""
11150  return _IMP_kernel.Vector5D___eq__(self, arg2)
11151 
11152  __truediv__ = __div__
11153  __itruediv__ = __idiv__
11154 
11155 
11156  def _get_as_binary(self):
11157  r"""_get_as_binary(Vector5D self) -> PyObject *"""
11158  return _IMP_kernel.Vector5D__get_as_binary(self)
11159 
11160  def _set_from_binary(self, p):
11161  r"""_set_from_binary(Vector5D self, PyObject * p)"""
11162  return _IMP_kernel.Vector5D__set_from_binary(self, p)
11163 
11164  def __getstate__(self):
11165  p = self._get_as_binary()
11166  if len(self.__dict__) > 1:
11167  d = self.__dict__.copy()
11168  del d['this']
11169  p = (d, p)
11170  return p
11171 
11172  def __setstate__(self, p):
11173  if not hasattr(self, 'this'):
11174  self.__init__()
11175  if isinstance(p, tuple):
11176  d, p = p
11177  self.__dict__.update(d)
11178  return self._set_from_binary(p)
11179 
11180 
11181  def __getitem__(self, index):
11182  if isinstance(index, slice):
11183  return [self[i] for i in range(*index.indices(len(self)))]
11184  else:
11185  return _IMP_kernel.Vector5D___getitem__(self, index)
11186 
11187 
11188 
11189  def __setitem__(self, index, val):
11190  if isinstance(index, slice):
11191  if not hasattr(val, '__iter__'):
11192  raise TypeError("must assign iterable to extended slice")
11193  inds = range(*index.indices(len(self)))
11194  if len(inds) != len(val):
11195  raise ValueError(
11196  "attempt to assign sequence of size %d "
11197  "to extended slice of size %d" % (len(val), len(inds)))
11198  for ind, v in zip(inds, val):
11199  self[ind] = v
11200  else:
11201  return _IMP_kernel.Vector5D___setitem__(self, index, val)
11202 
11203 
11204  __swig_destroy__ = _IMP_kernel.delete_Vector5D
11205 
11206 # Register Vector5D in _IMP_kernel:
11207 _IMP_kernel.Vector5D_swigregister(Vector5D)
11208 class Vector6D(_VectorBase6D):
11209  r"""Proxy of C++ IMP::VectorD< 6 > class."""
11210 
11211  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
11212 
11213  def get_unit_vector(self):
11214  r"""get_unit_vector(Vector6D self) -> Vector6D"""
11215  return _IMP_kernel.Vector6D_get_unit_vector(self)
11216 
11217  def __truediv__(self, *args):
11218  return _IMP_kernel.Vector6D___truediv__(self, *args)
11219  __div__ = __truediv__
11220 
11221 
11222 
11223  def __neg__(self):
11224  r"""__neg__(Vector6D self) -> Vector6D"""
11225  return _IMP_kernel.Vector6D___neg__(self)
11226 
11227  def __sub__(self, o):
11228  r"""__sub__(Vector6D self, Vector6D o) -> Vector6D"""
11229  return _IMP_kernel.Vector6D___sub__(self, o)
11230 
11231  def __add__(self, ret):
11232  r"""__add__(Vector6D self, Vector6D ret) -> Vector6D"""
11233  return _IMP_kernel.Vector6D___add__(self, ret)
11234 
11235  def __mul__(self, *args):
11236  r"""
11237  __mul__(Vector6D self, double s) -> Vector6D
11238  __mul__(Vector6D self, Vector6D o) -> double
11239  """
11240  return _IMP_kernel.Vector6D___mul__(self, *args)
11241 
11242  def __init__(self, *args):
11243  r"""
11244  __init__(Vector6D self, IMP::Floats const & f) -> Vector6D
11245  __init__(Vector6D self) -> Vector6D
11246  __init__(Vector6D self, double x0, double x1, double x2, double x3, double x4, double x5) -> Vector6D
11247  """
11248  _IMP_kernel.Vector6D_swiginit(self, _IMP_kernel.new_Vector6D(*args))
11249 
11250  def __iadd__(self, *args):
11251  _IMP_kernel.Vector6D___iadd__(self, *args)
11252  return self
11253 
11254 
11255 
11256  def __imul__(self, *args):
11257  _IMP_kernel.Vector6D___imul__(self, *args)
11258  return self
11259 
11260 
11261 
11262  def __idiv__(self, *args):
11263  _IMP_kernel.Vector6D___idiv__(self, *args)
11264  return self
11265 
11266 
11267 
11268  def __isub__(self, *args):
11269  _IMP_kernel.Vector6D___isub__(self, *args)
11270  return self
11271 
11272 
11273 
11274  def __len__(self):
11275  r"""__len__(Vector6D self) -> unsigned int"""
11276  return _IMP_kernel.Vector6D___len__(self)
11277 
11278  def __rmul__(self, f):
11279  r"""__rmul__(Vector6D self, double f) -> Vector6D"""
11280  return _IMP_kernel.Vector6D___rmul__(self, f)
11281 
11282  def __str__(self):
11283  r"""__str__(Vector6D self) -> std::string"""
11284  return _IMP_kernel.Vector6D___str__(self)
11285 
11286  def __repr__(self):
11287  r"""__repr__(Vector6D self) -> std::string"""
11288  return _IMP_kernel.Vector6D___repr__(self)
11289 
11290  def __cmp__(self, arg2):
11291  r"""__cmp__(Vector6D self, Vector6D arg2) -> int"""
11292  return _IMP_kernel.Vector6D___cmp__(self, arg2)
11293 
11294  def __eq__(self, arg2):
11295  r"""__eq__(Vector6D self, Vector6D arg2) -> bool"""
11296  return _IMP_kernel.Vector6D___eq__(self, arg2)
11297 
11298  __truediv__ = __div__
11299  __itruediv__ = __idiv__
11300 
11301 
11302  def _get_as_binary(self):
11303  r"""_get_as_binary(Vector6D self) -> PyObject *"""
11304  return _IMP_kernel.Vector6D__get_as_binary(self)
11305 
11306  def _set_from_binary(self, p):
11307  r"""_set_from_binary(Vector6D self, PyObject * p)"""
11308  return _IMP_kernel.Vector6D__set_from_binary(self, p)
11309 
11310  def __getstate__(self):
11311  p = self._get_as_binary()
11312  if len(self.__dict__) > 1:
11313  d = self.__dict__.copy()
11314  del d['this']
11315  p = (d, p)
11316  return p
11317 
11318  def __setstate__(self, p):
11319  if not hasattr(self, 'this'):
11320  self.__init__()
11321  if isinstance(p, tuple):
11322  d, p = p
11323  self.__dict__.update(d)
11324  return self._set_from_binary(p)
11325 
11326 
11327  def __getitem__(self, index):
11328  if isinstance(index, slice):
11329  return [self[i] for i in range(*index.indices(len(self)))]
11330  else:
11331  return _IMP_kernel.Vector6D___getitem__(self, index)
11332 
11333 
11334 
11335  def __setitem__(self, index, val):
11336  if isinstance(index, slice):
11337  if not hasattr(val, '__iter__'):
11338  raise TypeError("must assign iterable to extended slice")
11339  inds = range(*index.indices(len(self)))
11340  if len(inds) != len(val):
11341  raise ValueError(
11342  "attempt to assign sequence of size %d "
11343  "to extended slice of size %d" % (len(val), len(inds)))
11344  for ind, v in zip(inds, val):
11345  self[ind] = v
11346  else:
11347  return _IMP_kernel.Vector6D___setitem__(self, index, val)
11348 
11349 
11350  __swig_destroy__ = _IMP_kernel.delete_Vector6D
11351 
11352 # Register Vector6D in _IMP_kernel:
11353 _IMP_kernel.Vector6D_swigregister(Vector6D)
11354 class VectorKD(_VectorBaseKD):
11355  r"""Proxy of C++ IMP::VectorD< -1 > class."""
11356 
11357  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
11358 
11359  def get_unit_vector(self):
11360  r"""get_unit_vector(VectorKD self) -> VectorKD"""
11361  return _IMP_kernel.VectorKD_get_unit_vector(self)
11362 
11363  def __truediv__(self, *args):
11364  return _IMP_kernel.VectorKD___truediv__(self, *args)
11365  __div__ = __truediv__
11366 
11367 
11368 
11369  def __neg__(self):
11370  r"""__neg__(VectorKD self) -> VectorKD"""
11371  return _IMP_kernel.VectorKD___neg__(self)
11372 
11373  def __sub__(self, o):
11374  r"""__sub__(VectorKD self, VectorKD o) -> VectorKD"""
11375  return _IMP_kernel.VectorKD___sub__(self, o)
11376 
11377  def __add__(self, ret):
11378  r"""__add__(VectorKD self, VectorKD ret) -> VectorKD"""
11379  return _IMP_kernel.VectorKD___add__(self, ret)
11380 
11381  def __mul__(self, *args):
11382  r"""
11383  __mul__(VectorKD self, double s) -> VectorKD
11384  __mul__(VectorKD self, VectorKD o) -> double
11385  """
11386  return _IMP_kernel.VectorKD___mul__(self, *args)
11387 
11388  def __init__(self, *args):
11389  r"""
11390  __init__(VectorKD self, IMP::Floats const & f) -> VectorKD
11391  __init__(VectorKD self) -> VectorKD
11392  __init__(VectorKD self, double x0, double x1=std::numeric_limits< double >::max(), double x2=std::numeric_limits< double >::max(), double x3=std::numeric_limits< double >::max(), double x4=std::numeric_limits< double >::max(), double x5=std::numeric_limits< double >::max()) -> VectorKD
11393  """
11394  _IMP_kernel.VectorKD_swiginit(self, _IMP_kernel.new_VectorKD(*args))
11395 
11396  def __iadd__(self, *args):
11397  _IMP_kernel.VectorKD___iadd__(self, *args)
11398  return self
11399 
11400 
11401 
11402  def __imul__(self, *args):
11403  _IMP_kernel.VectorKD___imul__(self, *args)
11404  return self
11405 
11406 
11407 
11408  def __idiv__(self, *args):
11409  _IMP_kernel.VectorKD___idiv__(self, *args)
11410  return self
11411 
11412 
11413 
11414  def __isub__(self, *args):
11415  _IMP_kernel.VectorKD___isub__(self, *args)
11416  return self
11417 
11418 
11419 
11420  def __len__(self):
11421  r"""__len__(VectorKD self) -> unsigned int"""
11422  return _IMP_kernel.VectorKD___len__(self)
11423 
11424  def __rmul__(self, f):
11425  r"""__rmul__(VectorKD self, double f) -> VectorKD"""
11426  return _IMP_kernel.VectorKD___rmul__(self, f)
11427 
11428  def __str__(self):
11429  r"""__str__(VectorKD self) -> std::string"""
11430  return _IMP_kernel.VectorKD___str__(self)
11431 
11432  def __repr__(self):
11433  r"""__repr__(VectorKD self) -> std::string"""
11434  return _IMP_kernel.VectorKD___repr__(self)
11435 
11436  def __cmp__(self, arg2):
11437  r"""__cmp__(VectorKD self, VectorKD arg2) -> int"""
11438  return _IMP_kernel.VectorKD___cmp__(self, arg2)
11439 
11440  def __eq__(self, arg2):
11441  r"""__eq__(VectorKD self, VectorKD arg2) -> bool"""
11442  return _IMP_kernel.VectorKD___eq__(self, arg2)
11443 
11444  __truediv__ = __div__
11445  __itruediv__ = __idiv__
11446 
11447 
11448  def _get_as_binary(self):
11449  r"""_get_as_binary(VectorKD self) -> PyObject *"""
11450  return _IMP_kernel.VectorKD__get_as_binary(self)
11451 
11452  def _set_from_binary(self, p):
11453  r"""_set_from_binary(VectorKD self, PyObject * p)"""
11454  return _IMP_kernel.VectorKD__set_from_binary(self, p)
11455 
11456  def __getstate__(self):
11457  p = self._get_as_binary()
11458  if len(self.__dict__) > 1:
11459  d = self.__dict__.copy()
11460  del d['this']
11461  p = (d, p)
11462  return p
11463 
11464  def __setstate__(self, p):
11465  if not hasattr(self, 'this'):
11466  self.__init__()
11467  if isinstance(p, tuple):
11468  d, p = p
11469  self.__dict__.update(d)
11470  return self._set_from_binary(p)
11471 
11472 
11473  def __getitem__(self, index):
11474  if isinstance(index, slice):
11475  return [self[i] for i in range(*index.indices(len(self)))]
11476  else:
11477  return _IMP_kernel.VectorKD___getitem__(self, index)
11478 
11479 
11480 
11481  def __setitem__(self, index, val):
11482  if isinstance(index, slice):
11483  if not hasattr(val, '__iter__'):
11484  raise TypeError("must assign iterable to extended slice")
11485  inds = range(*index.indices(len(self)))
11486  if len(inds) != len(val):
11487  raise ValueError(
11488  "attempt to assign sequence of size %d "
11489  "to extended slice of size %d" % (len(val), len(inds)))
11490  for ind, v in zip(inds, val):
11491  self[ind] = v
11492  else:
11493  return _IMP_kernel.VectorKD___setitem__(self, index, val)
11494 
11495 
11496  __swig_destroy__ = _IMP_kernel.delete_VectorKD
11497 
11498 # Register VectorKD in _IMP_kernel:
11499 _IMP_kernel.VectorKD_swigregister(VectorKD)
11500 
11501 def get_basis_vector_1d(coordinate):
11502  r"""get_basis_vector_1d(unsigned int coordinate) -> Vector1D"""
11503  return _IMP_kernel.get_basis_vector_1d(coordinate)
11504 
11505 def get_basis_vector_2d(coordinate):
11506  r"""get_basis_vector_2d(unsigned int coordinate) -> Vector2D"""
11507  return _IMP_kernel.get_basis_vector_2d(coordinate)
11508 
11509 def get_basis_vector_3d(coordinate):
11510  r"""get_basis_vector_3d(unsigned int coordinate) -> Vector3D"""
11511  return _IMP_kernel.get_basis_vector_3d(coordinate)
11512 
11513 def get_basis_vector_4d(coordinate):
11514  r"""get_basis_vector_4d(unsigned int coordinate) -> Vector4D"""
11515  return _IMP_kernel.get_basis_vector_4d(coordinate)
11516 
11517 def get_basis_vector_5d(coordinate):
11518  r"""get_basis_vector_5d(unsigned int coordinate) -> Vector5D"""
11519  return _IMP_kernel.get_basis_vector_5d(coordinate)
11520 
11521 def get_basis_vector_6d(coordinate):
11522  r"""get_basis_vector_6d(unsigned int coordinate) -> Vector6D"""
11523  return _IMP_kernel.get_basis_vector_6d(coordinate)
11524 
11525 def get_zero_vector_1d():
11526  r"""get_zero_vector_1d() -> Vector1D"""
11527  return _IMP_kernel.get_zero_vector_1d()
11528 
11529 def get_zero_vector_2d():
11530  r"""get_zero_vector_2d() -> Vector2D"""
11531  return _IMP_kernel.get_zero_vector_2d()
11532 
11533 def get_zero_vector_3d():
11534  r"""get_zero_vector_3d() -> Vector3D"""
11535  return _IMP_kernel.get_zero_vector_3d()
11536 
11537 def get_zero_vector_4d():
11538  r"""get_zero_vector_4d() -> Vector4D"""
11539  return _IMP_kernel.get_zero_vector_4d()
11540 
11541 def get_zero_vector_5d():
11542  r"""get_zero_vector_5d() -> Vector5D"""
11543  return _IMP_kernel.get_zero_vector_5d()
11544 
11545 def get_zero_vector_6d():
11546  r"""get_zero_vector_6d() -> Vector6D"""
11547  return _IMP_kernel.get_zero_vector_6d()
11548 
11549 def get_ones_vector_1d(v=1):
11550  r"""get_ones_vector_1d(double v=1) -> Vector1D"""
11551  return _IMP_kernel.get_ones_vector_1d(v)
11552 
11553 def get_ones_vector_2d(v=1):
11554  r"""get_ones_vector_2d(double v=1) -> Vector2D"""
11555  return _IMP_kernel.get_ones_vector_2d(v)
11556 
11557 def get_ones_vector_3d(v=1):
11558  r"""get_ones_vector_3d(double v=1) -> Vector3D"""
11559  return _IMP_kernel.get_ones_vector_3d(v)
11560 
11561 def get_ones_vector_4d(v=1):
11562  r"""get_ones_vector_4d(double v=1) -> Vector4D"""
11563  return _IMP_kernel.get_ones_vector_4d(v)
11564 
11565 def get_ones_vector_5d(v=1):
11566  r"""get_ones_vector_5d(double v=1) -> Vector5D"""
11567  return _IMP_kernel.get_ones_vector_5d(v)
11568 
11569 def get_ones_vector_6d(v=1):
11570  r"""get_ones_vector_6d(double v=1) -> Vector6D"""
11571  return _IMP_kernel.get_ones_vector_6d(v)
11572 class _RestraintsScoringFunction(ScoringFunction):
11573  r"""Proxy of C++ IMP::internal::GenericRestraintsScoringFunction< ::IMP::Restraints > class."""
11574 
11575  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
11576  __repr__ = _swig_repr
11577 
11578  def __init__(self, *args):
11579  r"""
11580  __init__(_RestraintsScoringFunction self, IMP::RestraintsTemp const & rs, double weight=1.0, double max=NO_MAX, std::string name="RestraintsScoringFunction%1%") -> _RestraintsScoringFunction
11581  __init__(_RestraintsScoringFunction self) -> _RestraintsScoringFunction
11582  """
11583  _IMP_kernel._RestraintsScoringFunction_swiginit(self, _IMP_kernel.new__RestraintsScoringFunction(*args))
11584 
11585  def do_add_score_and_derivatives(self, sa, ss):
11586  r"""do_add_score_and_derivatives(_RestraintsScoringFunction self, ScoreAccumulator sa, IMP::ScoreStatesTemp const & ss)"""
11587  return _IMP_kernel._RestraintsScoringFunction_do_add_score_and_derivatives(self, sa, ss)
11588 
11589  def do_add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis, ss):
11590  r"""do_add_score_and_derivatives_moved(_RestraintsScoringFunction self, ScoreAccumulator sa, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis, IMP::ScoreStatesTemp const & ss)"""
11591  return _IMP_kernel._RestraintsScoringFunction_do_add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis, ss)
11592 
11593  def do_get_inputs(self):
11594  r"""do_get_inputs(_RestraintsScoringFunction self) -> IMP::ModelObjectsTemp"""
11595  return _IMP_kernel._RestraintsScoringFunction_do_get_inputs(self)
11596 
11597  def get_restraints(self):
11598  r"""get_restraints(_RestraintsScoringFunction self) -> IMP::Vector< IMP::Pointer< IMP::Restraint >,std::allocator< IMP::Pointer< IMP::Restraint > > > const &"""
11599  return _IMP_kernel._RestraintsScoringFunction_get_restraints(self)
11600 
11601  def set_restraints(self, s):
11602  r"""set_restraints(_RestraintsScoringFunction self, IMP::RestraintsTemp const & s)"""
11603  return _IMP_kernel._RestraintsScoringFunction_set_restraints(self, s)
11604 
11605  def get_number_of_restraints(self):
11606  r"""get_number_of_restraints(_RestraintsScoringFunction self) -> unsigned int"""
11607  return _IMP_kernel._RestraintsScoringFunction_get_number_of_restraints(self)
11608 
11609  def clear_restraints(self):
11610  r"""clear_restraints(_RestraintsScoringFunction self)"""
11611  return _IMP_kernel._RestraintsScoringFunction_clear_restraints(self)
11612 
11613  def get_restraint(self, i):
11614  r"""get_restraint(_RestraintsScoringFunction self, unsigned int i) -> Restraint"""
11615  return _IMP_kernel._RestraintsScoringFunction_get_restraint(self, i)
11616 
11617  def erase_restraint(self, i):
11618  r"""erase_restraint(_RestraintsScoringFunction self, unsigned int i)"""
11619  return _IMP_kernel._RestraintsScoringFunction_erase_restraint(self, i)
11620 
11621  def add_restraint(self, r):
11622  r"""add_restraint(_RestraintsScoringFunction self, Restraint r) -> unsigned int"""
11623  return _IMP_kernel._RestraintsScoringFunction_add_restraint(self, r)
11624 
11625  def add_restraints(self, r):
11626  r"""add_restraints(_RestraintsScoringFunction self, IMP::Vector< IMP::Pointer< IMP::Restraint >,std::allocator< IMP::Pointer< IMP::Restraint > > > const & r)"""
11627  return _IMP_kernel._RestraintsScoringFunction_add_restraints(self, r)
11628 
11629  def _python_index_restraint(self, r, start, stop):
11630  r"""_python_index_restraint(_RestraintsScoringFunction self, Restraint r, unsigned int start, unsigned int stop) -> unsigned int"""
11631  return _IMP_kernel._RestraintsScoringFunction__python_index_restraint(self, r, start, stop)
11632 
11633  def get_version_info(self):
11634  r"""get_version_info(_RestraintsScoringFunction self) -> VersionInfo"""
11635  return _IMP_kernel._RestraintsScoringFunction_get_version_info(self)
11636  __swig_destroy__ = _IMP_kernel.delete__RestraintsScoringFunction
11637 
11638  @staticmethod
11639  def get_from(o):
11640  return _object_cast_to__RestraintsScoringFunction(o)
11641 
11642 
11643  def __get_restraints(self):
11644  return _list_util.VarList(
11645  getdimfunc=self.get_number_of_restraints,
11646  getfunc=self.get_restraint, erasefunc=self.erase_restraint,
11647  appendfunc=self.add_restraint, extendfunc=self.add_restraints,
11648  clearfunc=self.clear_restraints,
11649  indexfunc=self._python_index_restraint)
11650 
11651  def __set_restraints(self, obj):
11652  _list_util.set_varlist(self.restraints, obj)
11653 
11654  def __del_restraints(self):
11655  _list_util.del_varlist(self.restraints)
11656 
11657  restraints = property(__get_restraints, __set_restraints,
11658  __del_restraints, doc="List of Restraints")
11659 
11660 
11661  def _get_jax(self):
11662  import IMP._jax_util
11663  jis = [r.get_derived_object()._get_jax() for r in self.restraints]
11664  funcs = [j.score_func for j in jis]
11665  keys = frozenset(x for j in jis for x in j._keys)
11666  def jax_sf(jm):
11667  return sum(f(jm) for f in funcs)
11668  return IMP._jax_util.JAXRestraintInfo(
11669  m=self.get_model(), score_func=jax_sf, weight=1.0, keys=keys)
11670 
11671 
11672 # Register _RestraintsScoringFunction in _IMP_kernel:
11673 _IMP_kernel._RestraintsScoringFunction_swigregister(_RestraintsScoringFunction)
11674 class ScopedSetFloatAttribute(_RAII):
11675  r"""Proxy of C++ IMP::ScopedSetAttribute< IMP::FloatKey,IMP::Float > class."""
11676 
11677  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
11678 
11679  def __init__(self, *args):
11680  r"""
11681  __init__(ScopedSetFloatAttribute self) -> ScopedSetFloatAttribute
11682  __init__(ScopedSetFloatAttribute self, Particle p, FloatKey key, double const & value) -> ScopedSetFloatAttribute
11683  """
11684  _IMP_kernel.ScopedSetFloatAttribute_swiginit(self, _IMP_kernel.new_ScopedSetFloatAttribute(*args))
11685 
11686  def set(self, p, key, value):
11687  r"""set(ScopedSetFloatAttribute self, Particle p, FloatKey key, double const & value)"""
11688  return _IMP_kernel.ScopedSetFloatAttribute_set(self, p, key, value)
11689 
11690  def reset(self):
11691  r"""reset(ScopedSetFloatAttribute self)"""
11692  return _IMP_kernel.ScopedSetFloatAttribute_reset(self)
11693  __swig_destroy__ = _IMP_kernel.delete_ScopedSetFloatAttribute
11694 
11695  def show(self, *args):
11696  r"""show(ScopedSetFloatAttribute self, _ostream out=std::cout)"""
11697  return _IMP_kernel.ScopedSetFloatAttribute_show(self, *args)
11698 
11699  def __str__(self):
11700  r"""__str__(ScopedSetFloatAttribute self) -> std::string"""
11701  return _IMP_kernel.ScopedSetFloatAttribute___str__(self)
11702 
11703  def __repr__(self):
11704  r"""__repr__(ScopedSetFloatAttribute self) -> std::string"""
11705  return _IMP_kernel.ScopedSetFloatAttribute___repr__(self)
11706 
11707 # Register ScopedSetFloatAttribute in _IMP_kernel:
11708 _IMP_kernel.ScopedSetFloatAttribute_swigregister(ScopedSetFloatAttribute)
11709 
11710 def _get_module_data_path(module, file_name):
11711  r"""_get_module_data_path(std::string module, std::string file_name) -> std::string"""
11712  return _IMP_kernel._get_module_data_path(module, file_name)
11713 
11714 def _get_module_example_path(module, file_name):
11715  r"""_get_module_example_path(std::string module, std::string file_name) -> std::string"""
11716  return _IMP_kernel._get_module_example_path(module, file_name)
11717 
11718 #used_modules=[]
11719 #def show_used_modules():
11720 # for m in used_modules:
11721 # print "%-20s %s" % (m.get_module(), m.get_version())
11722 
11723 # Ensure that Windows gets the PATH set to include anything in the library
11724 # search path
11725 if sys.platform == 'win32' and 'IMP_LD_PATH' in os.environ:
11726  dirs = os.environ['IMP_LD_PATH'].split(":")
11727  pathcomps = os.environ['PATH'].split(";")
11728  for d in dirs:
11729  if d not in pathcomps:
11730  os.environ['PATH'] = d + ';' + os.environ['PATH']
11731 
11732 
11733 
11734 import sys
11735 import os
11736 
11738  """Allow command line tools to easily implement multiple commands.
11739  Typically, an IMP command line tool will use an instance of this class
11740  to provide a consistent interface to multiple distinct commands
11741  from a single binary, rather than providing a potentially large
11742  number of binaries. This is similar to the way a number of common
11743  command line tools outside of IMP function (e.g. Git provides a single
11744  `git` tool which implements multiple commands - `git add`, `git commit`,
11745  `git push` and so on).
11746 
11747  Each command is implemented with a Python module of the same name
11748  that can be imported from the module (for example, if `module_name`
11749  is `IMP.foo`, the `bar` command is provided by the `IMP.foo.bar` Python
11750  module, which would usually be found as `modules/foo/pyext/src/bar.py`).
11751  Each such module should have a docstring and a `%main()` method
11752  that takes no arguments (the module should also call its `%main()` method
11753  if it is run directly, i.e. with something like
11754  `if __name__=="__main__": %main()`). The encompassing module
11755  (`IMP.foo` in the example) should define `_all_commands` as a Python
11756  list of all valid commands.
11757 
11758  See the `multifit` and `cnmultifit` command line tools for example
11759  usage.
11760  """
11761 
11762  def __init__(self, short_help, long_help, module_name):
11763  """Constructor.
11764  @param short_help A few words that describe the command line tool.
11765  @param long_help Longer text, used in the `help` command.
11766  @param module_name Name of the module (e.g. `IMP.foo`) that
11767  implements the commands.
11768  """
11769  self.short_help = short_help
11770  self.long_help = long_help
11771  self.module_name = module_name
11772  self._all_commands = self.import_module()._all_commands
11773  self._progname = os.path.basename(sys.argv[0])
11774 
11775  def main(self):
11776  """Call this method to act upon the user-provided command line"""
11777  if len(sys.argv) <= 1:
11778  print(self.short_help + " Use '%s help' for help." % self._progname)
11779  else:
11780  command = sys.argv[1]
11781  if command in ('help', '--help', '-h'):
11782  if len(sys.argv) == 3:
11783  self.show_command_help(sys.argv[2])
11784  else:
11785  self.show_help()
11786  elif command == '--version':
11787  self.show_version()
11788  elif command in self._all_commands:
11789  self.do_command(command)
11790  else:
11791  self.unknown_command(command)
11792 
11793  def import_module(self, mod=None):
11794  modname = self.module_name
11795  if mod is not None:
11796  modname += "." + mod
11797  return __import__(modname, {}, {}, [''])
11798 
11799  def unknown_command(self, command):
11800  print("Unknown command: '%s'" % command)
11801  print("Use '%s help' for help." % self._progname)
11802  sys.exit(1)
11803 
11804  def _get_version(self):
11805  return self.import_module().get_module_version()
11806 
11807  def show_version(self):
11808  print(self._progname + ' ' + self._get_version())
11809 
11810  def show_help(self):
11811  ver = self._get_version()
11812  print("%s, version %s." % (self._progname, ver))
11813  print(self.long_help + """
11814 
11815 This program is part of IMP, the Integrative Modeling Platform,
11816 which is %s.
11817 For additional information about IMP, see <https://integrativemodeling.org>.
11818 
11819 Usage: %s <command> [options] [args]
11820 
11821 Commands:""" % (get_copyright(), self._progname))
11822  commands = self._all_commands[:] + ['help']
11823  commands.sort()
11824  cmdlen = max([len(c) for c in commands])
11825  for c in commands:
11826  if c == 'help':
11827  doc = 'Get help on using %s.' % self._progname
11828  else:
11829  doc = self.import_module(c).__doc__ or "<no help>"
11830  c += ' ' * (cmdlen - len(c))
11831  print(' ' + c + ' ' + doc)
11832  print("""
11833 Use "%s help <command>" for detailed help on any command
11834  or "%s --version" to see the version number.""" % (self._progname,
11835  self._progname))
11836 
11837  def do_command(self, command):
11838  mod = self.import_module(command)
11839  sys.argv[0] = self._progname + ' ' + command
11840  del sys.argv[1]
11841  mod.main()
11842 
11843  def show_command_help(self, command):
11844  if command == 'help':
11845  self.show_help()
11846  elif command in self._all_commands or command == 'help':
11847  mod = self.import_module(command)
11848  sys.argv = [self._progname + ' ' + command, '--help']
11849  mod.main()
11850  else:
11851  self.unknown_command(command)
11852 
11853 
11854 
11855 
11856 def get_networkx_graph(ig):
11857  import networkx
11858  g = networkx.DiGraph()
11859  if len(ig.get_vertices()) == 0:
11860  return g
11861 
11862  class NodeWrapper:
11863 
11864  def __init__(self, p):
11865  self.p = p
11866 
11867  def __str__(self):
11868  return self.p.get_name()
11869 
11870  def __call__(self, name):
11871  return self.p.__call__(name)
11872 
11873  for vi in ig.get_vertices():
11874  n = ig.get_vertex_name(vi)
11875  g.add_node(NodeWrapper(n))
11876  for vi in ig.get_vertices():
11877  n = ig.get_vertex_name(vi)
11878  for ni in ig.get_out_neighbors(vi):
11879  nn = ig.get_vertex_name(ni)
11880  g.add_edge(NodeWrapper(n), NodeWrapper(nn))
11881  return g
11882 
11883 
11884 def show_altgraph(g):
11885  def clean(name):
11886  try:
11887  n0 = name.get_name()
11888  except:
11889  n0 = str(name)
11890  n1 = str(n0).replace('"', '')
11891  n2 = n1.replace("\n", '')
11892  return n2
11893  import altgraph
11894  from altgraph import Graph, Dot
11895  graph = Graph.Graph()
11896  for i, v in enumerate(g.get_vertices()):
11897  graph.add_node(i) # , node_data=g.get_vertex_name(v)
11898  for i, v in enumerate(g.get_vertices()):
11899  for n in g.get_out_neighbors(v):
11900  graph.add_edge(v, n)
11901  dot = Dot.Dot(graph) # , graph_type="digraph"
11902  for i, v in enumerate(g.get_vertices()):
11903  dot.node_style(i, label=clean(g.get_vertex_name(v)))
11904  dot.display()
11905 
11906 
11907 def show_graphviz(g):
11908  import subprocess
11909  tfn = create_temporary_file_name("graph", ".dot")
11910  tfon = create_temporary_file_name("graph", ".pdf")
11911  st = g.get_graphviz_string()
11912  with open(tfn, "w") as fh:
11913  fh.write(st)
11914  try:
11915  print("running dot")
11916  sp = subprocess.Popen(["dot", "-Tpdf", tfn, "-o" + tfon])
11917  sp.wait()
11918  except:
11919  import sys
11920  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")
11921  return
11922  import platform
11923  if platform.system() == "Darwin":
11924  cmd = ["open"]
11925  else:
11926  cmd = ["gv", "acroread", "xpdf"]
11927  success = False
11928  for c in cmd:
11929  print("launching viewer " + c)
11930  try:
11931  subprocess.check_call([c, tfon])
11932  success = True
11933  break
11934  except:
11935  pass
11936  if not success:
11937  print("Could not display file. It is saved at " + tfon)
11938  return tfon
11939 
11940 
11941 
11942 
11943 import functools
11944 import contextlib
11945 
11946 def deprecated_module(version, module, help_message):
11947  """Mark a Python module as deprecated.
11948  @note The `module` argument would normally be `__name__`.
11949  @see [deprecation support](@ref deprecation)."""
11951  "Module %s is deprecated. %s\n" % (module, help_message))
11952 
11953 def deprecated_object(version, help_message):
11954  """Python decorator to mark a class as deprecated.
11955  @see [deprecation support](@ref deprecation)."""
11956  def wrapper(obj):
11957  orig_init = obj.__init__
11958 # Don't try to copy __module__ since __init__ may not have it
11959 # (e.g. if we subclassed object but didn't override __init__)
11960  @functools.wraps(orig_init, ('__name__', '__doc__'))
11961  def __init__(obj, *args, **keys):
11962  handle_use_deprecated("Object %s is deprecated. %s\n"
11963  % (type(obj), help_message))
11964  orig_init(obj, *args, **keys)
11965  obj.__init__ = __init__
11966  return obj
11967  return wrapper
11968 
11969 def deprecated_method(version, help_message):
11970  """Python decorator to mark a method as deprecated.
11971  @see [deprecation support](@ref deprecation)."""
11972  def out_wrapper(obj):
11973  @functools.wraps(obj)
11974  def wrapper(cls, *args, **keys):
11975  handle_use_deprecated("Method %s in %s is deprecated. %s\n"
11976  % (obj.__name__, type(cls), help_message))
11977  return obj(cls, *args, **keys)
11978  return wrapper
11979  return out_wrapper
11980 
11981 def deprecated_function(version, help_message):
11982  """Python decorator to mark a function as deprecated.
11983  @see [deprecation support](@ref deprecation)."""
11984  def out_wrapper(obj):
11985  @functools.wraps(obj)
11986  def wrapper(*args, **keys):
11987  handle_use_deprecated("Function %s is deprecated. %s\n"
11988  % (obj.__name__, help_message))
11989  return obj(*args, **keys)
11990  return wrapper
11991  return out_wrapper
11992 
11993 @contextlib.contextmanager
11994 def allow_deprecated(allow=True):
11995  """Context manager to temporarily allow (or disallow) deprecated code.
11996  @see [deprecation support](@ref deprecation)."""
11998  set_deprecation_exceptions(not allow)
11999  yield
12001 
12002 
12003 def _get_all_flags(ntokens):
12004  r"""_get_all_flags(unsigned int ntokens) -> IMP::Strings"""
12005  return _IMP_kernel._get_all_flags(ntokens)
12006 
12007 def _print_internal_help(out, description):
12008  r"""_print_internal_help(_ostream out, std::string description)"""
12009  return _IMP_kernel._print_internal_help(out, description)
12010 
12011 
12012 import argparse
12013 import sys
12014 
12015 class _PassThroughAction(argparse.Action):
12016  """Pass an argument through to the IMP Boost parser"""
12017  def __call__(self, parser, namespace, values, option_string=None):
12018  parser._boost_command_line.append(option_string)
12019  if values != []:
12020  parser._boost_command_line.append(values)
12021 # Terminate processing immediately if necessary (otherwise argparse
12022 # may fail if we're missing positional arguments)
12023  if option_string in ('-h', '--help', '--help_advanced', '--version'):
12024  parser._handle_boost()
12025 
12026 
12027 class ArgumentParser(argparse.ArgumentParser):
12028  """IMP-specific subclass of argparse.ArgumentParser.
12029  This adds options common to all IMP applications
12030  (see IMP::setup_from_argv()).
12031  """
12032 
12033  def __init__(self, *args, **kwargs):
12034 # Don't add --help option (since the Boost option parser handles it)
12035  kwargs['add_help'] = False
12036  super().__init__(*args, **kwargs)
12037  for ntoken in (0, 1):
12038  flags = _get_all_flags(ntoken)
12039  for f in flags:
12040  arg = ['-h', '--help'] if f == 'help' else ['--' + f]
12041  self.add_argument(*arg, help=argparse.SUPPRESS,
12042  nargs=None if ntoken else 0,
12043  action=_PassThroughAction,
12044  default=argparse.SUPPRESS)
12045 
12046  def parse_args(self, args=None, namespace=None):
12047  """Parse the command line and return optional and positional arguments.
12048  This functions in the same way as the method in the base class
12049  argparse.ArgumentParser, except that it also processes optional
12050  arguments common to all IMP applications (these are not returned
12051  in `args`, but can be obtained in the usual way, e.g. by calling
12052  IMP::get_string_flag()).
12053  @returns args
12054  """
12055  self._boost_command_line = [sys.argv[0]]
12056  ret = super().parse_args(args, namespace)
12057  if len(self._boost_command_line) > 1:
12058  self._handle_boost()
12059  return ret
12060 
12061  def _get_description(self):
12062  return self.format_help() + "\nOptions common to all IMP applications:"
12063 
12064  def print_help(self, file=None):
12065  _print_internal_help(file if file else sys.stdout,
12066  self._get_description())
12067 
12068  def _handle_boost(self):
12069  setup_from_argv(self._boost_command_line,
12070  self._get_description(),
12071  '==SUPPRESS==', 0)
12072 
12073 class RandomNumberGenerator(object):
12074  r"""Proxy of C++ IMP::RandomNumberGenerator class."""
12075 
12076  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
12077  __repr__ = _swig_repr
12078 
12079  def seed(self, x):
12080  r"""seed(RandomNumberGenerator self, int x)"""
12081  return _IMP_kernel.RandomNumberGenerator_seed(self, x)
12082 
12083  def __call__(self):
12084  r"""__call__(RandomNumberGenerator self) -> int"""
12085  return _IMP_kernel.RandomNumberGenerator___call__(self)
12086 
12087  def __init__(self):
12088  r"""__init__(RandomNumberGenerator self) -> RandomNumberGenerator"""
12089  _IMP_kernel.RandomNumberGenerator_swiginit(self, _IMP_kernel.new_RandomNumberGenerator())
12090  __swig_destroy__ = _IMP_kernel.delete_RandomNumberGenerator
12091 
12092 # Register RandomNumberGenerator in _IMP_kernel:
12093 _IMP_kernel.RandomNumberGenerator_swigregister(RandomNumberGenerator)
12094 
12095 def get_random_float_uniform(*args):
12096  r"""
12097  get_random_float_uniform() -> float
12098  get_random_float_uniform(float min, float max) -> float
12099  """
12100  return _IMP_kernel.get_random_float_uniform(*args)
12101 
12102 def get_random_double_uniform(*args):
12103  r"""
12104  get_random_double_uniform() -> double
12105  get_random_double_uniform(double min, double max) -> double
12106  """
12107  return _IMP_kernel.get_random_double_uniform(*args)
12108 
12109 def get_random_floats_normal(n, mean=0.0, stddev=1.0):
12110  r"""get_random_floats_normal(unsigned int n, float mean=0.0, float stddev=1.0) -> IMP::Vector< float,std::allocator< float > >"""
12111  return _IMP_kernel.get_random_floats_normal(n, mean, stddev)
12112 
12113 def get_random_doubles_normal(n, mean=0.0, stddev=1.0):
12114  r"""get_random_doubles_normal(unsigned int n, double mean=0.0, double stddev=1.0) -> IMP::Vector< double,std::allocator< double > >"""
12115  return _IMP_kernel.get_random_doubles_normal(n, mean, stddev)
12116 
12117 def get_random_floats_uniform(n):
12118  r"""get_random_floats_uniform(unsigned int n) -> IMP::Vector< float,std::allocator< float > >"""
12119  return _IMP_kernel.get_random_floats_uniform(n)
12120 
12121 def get_random_doubles_uniform(n):
12122  r"""get_random_doubles_uniform(unsigned int n) -> IMP::Vector< double,std::allocator< double > >"""
12123  return _IMP_kernel.get_random_doubles_uniform(n)
12124 
12125 def get_random_seed():
12126  r"""get_random_seed() -> boost::uint64_t"""
12127  return _IMP_kernel.get_random_seed()
12128 
12129 def _get_derivatives_numpy(m, k, m_pyobj, read_only):
12130  r"""_get_derivatives_numpy(Model m, FloatKey k, PyObject * m_pyobj, bool read_only) -> PyObject *"""
12131  return _IMP_kernel._get_derivatives_numpy(m, k, m_pyobj, read_only)
12132 
12133 def _get_floats_numpy(m, k, m_pyobj, read_only):
12134  r"""_get_floats_numpy(Model m, FloatKey k, PyObject * m_pyobj, bool read_only) -> PyObject *"""
12135  return _IMP_kernel._get_floats_numpy(m, k, m_pyobj, read_only)
12136 
12137 def _get_ints_numpy(m, k, m_pyobj, read_only):
12138  r"""_get_ints_numpy(Model m, IntKey k, PyObject * m_pyobj, bool read_only) -> PyObject *"""
12139  return _IMP_kernel._get_ints_numpy(m, k, m_pyobj, read_only)
12140 
12141 def _get_vector3ds_numpy(m, k, m_pyobj, read_only):
12142  r"""_get_vector3ds_numpy(Model m, Vector3DKey k, PyObject * m_pyobj, bool read_only) -> PyObject *"""
12143  return _IMP_kernel._get_vector3ds_numpy(m, k, m_pyobj, read_only)
12144 
12145 def _get_vector3dderiv_numpy(m, k, m_pyobj, read_only):
12146  r"""_get_vector3dderiv_numpy(Model m, Vector3DDerivKey k, PyObject * m_pyobj, bool read_only) -> PyObject *"""
12147  return _IMP_kernel._get_vector3dderiv_numpy(m, k, m_pyobj, read_only)
12148 
12149 def _get_vector3dderiv_derivatives_numpy(m, k, m_pyobj, read_only):
12150  r"""_get_vector3dderiv_derivatives_numpy(Model m, Vector3DDerivKey k, PyObject * m_pyobj, bool read_only) -> PyObject *"""
12151  return _IMP_kernel._get_vector3dderiv_derivatives_numpy(m, k, m_pyobj, read_only)
12152 
12153 def _get_vector4ds_numpy(m, k, m_pyobj, read_only):
12154  r"""_get_vector4ds_numpy(Model m, Vector4DKey k, PyObject * m_pyobj, bool read_only) -> PyObject *"""
12155  return _IMP_kernel._get_vector4ds_numpy(m, k, m_pyobj, read_only)
12156 
12157 def _get_vector4dderiv_numpy(m, k, m_pyobj, read_only):
12158  r"""_get_vector4dderiv_numpy(Model m, Vector4DDerivKey k, PyObject * m_pyobj, bool read_only) -> PyObject *"""
12159  return _IMP_kernel._get_vector4dderiv_numpy(m, k, m_pyobj, read_only)
12160 
12161 def _get_vector4dderiv_derivatives_numpy(m, k, m_pyobj, read_only):
12162  r"""_get_vector4dderiv_derivatives_numpy(Model m, Vector4DDerivKey k, PyObject * m_pyobj, bool read_only) -> PyObject *"""
12163  return _IMP_kernel._get_vector4dderiv_derivatives_numpy(m, k, m_pyobj, read_only)
12164 
12165 def _get_spheres_numpy(m, m_pyobj, read_only):
12166  r"""_get_spheres_numpy(Model m, PyObject * m_pyobj, bool read_only) -> PyObject *"""
12167  return _IMP_kernel._get_spheres_numpy(m, m_pyobj, read_only)
12168 
12169 def _get_sphere_derivatives_numpy(m, m_pyobj, read_only):
12170  r"""_get_sphere_derivatives_numpy(Model m, PyObject * m_pyobj, bool read_only) -> PyObject *"""
12171  return _IMP_kernel._get_sphere_derivatives_numpy(m, m_pyobj, read_only)
12172 
12173 def _get_internal_coordinates_numpy(m, m_pyobj, read_only):
12174  r"""_get_internal_coordinates_numpy(Model m, PyObject * m_pyobj, bool read_only) -> PyObject *"""
12175  return _IMP_kernel._get_internal_coordinates_numpy(m, m_pyobj, read_only)
12176 
12177 def _get_internal_coordinate_derivatives_numpy(m, m_pyobj, read_only):
12178  r"""_get_internal_coordinate_derivatives_numpy(Model m, PyObject * m_pyobj, bool read_only) -> PyObject *"""
12179  return _IMP_kernel._get_internal_coordinate_derivatives_numpy(m, m_pyobj, read_only)
12180 
12181 try:
12182  import numpy
12183  ParticleIndex = numpy.intc
12184 except ImportError:
12185  pass
12186 
12187 
12188 class JAXWarning(UserWarning):
12189  """Warning for incomplete JAX support or different behavior of JAX code"""
12190  pass
12191 
12192 
12193 def get_module_name():
12194  r"""get_module_name() -> std::string const"""
12195  return _IMP_kernel.get_module_name()
12196 
12197 def get_module_version():
12198  r"""get_module_version() -> std::string const"""
12199  return _IMP_kernel.get_module_version()
12200 
12201 def get_example_path(fname):
12202  r"""get_example_path(std::string fname) -> std::string"""
12203  return _IMP_kernel.get_example_path(fname)
12204 
12205 def get_data_path(fname):
12206  r"""get_data_path(std::string fname) -> std::string"""
12207  return _IMP_kernel.get_data_path(fname)
12208 
12209 from . import _version_check
12210 _version_check.check_version(get_module_version())
12211 __version__ = get_module_version()
12212 
12213 
12214 random_number_generator = cvar.random_number_generator
12215 
Particle * get_particle(ParticleIndex p) const
Get the particle from an index.
Definition: Model.h:531
A base class for modifiers of ParticlesTemp.
A class to store a configuration of a model.
Definition: Configuration.h:20
def get_ints_numpy
Get the model's attribute array for IntKey k as a NumPy array.
Definition: __init__.py:6712
VectorD< D > get_basis_vector_kd(int Di, unsigned int coordinate)
Return the basis vector for the given coordinate.
Definition: VectorD.h:222
Abstract class for scoring object(s) of type ParticleIndexPair.
Definition: PairScore.h:44
A shared container for Pairs.
Definition: PairContainer.h:39
void add_int_flag(std::string name, size_t default_value, std::string description)
Allow command line tools to easily implement multiple commands.
Definition: __init__.py:11737
CheckLevel get_check_level()
Get the current audit mode.
Definition: exception.h:80
VectorD< D > get_ones_vector_kd(unsigned int Di, double v=1)
Return a vector of ones (or another constant)
Definition: VectorD.h:295
Key< 11 > TriggerKey
The type used to identify changed model properties.
Definition: base_types.h:82
bool get_is_quick_test()
Definition: flags.h:183
Abstract predicate function.
Definition: QuadPredicate.h:31
Key< 0 > FloatKey
The type used to identify float attributes in the Particles.
Definition: base_types.h:32
def allow_deprecated
Context manager to temporarily allow (or disallow) deprecated code.
Definition: __init__.py:11994
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.
Definition: __init__.py:6737
Objects get_live_objects()
Return pointers to all live objects.
def get_derived_object
Return this object cast to the most derived subclass.
Definition: __init__.py:1361
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.
Definition: base_types.h:90
def main
Call this method to act upon the user-provided command line.
Definition: __init__.py:11775
Key< 15 > SparseParticleIndexKey
The type used to identify sparse particle attributes in the Particles.
Definition: base_types.h:98
Vector3D get_orthogonal_vector(const Vector3D &v)
Return a vector that is perpendicular to the given vector.
Definition: Vector3D.h:50
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.
Definition: __init__.py:11946
Key< 16 > Vector3DKey
The type used to identify 3D vector attributes in the Particles.
Definition: base_types.h:102
Vector< VectorD< D > > get_vertices(const BoundingBoxD< D > &bb)
Return a list of the 2^D bounding points for the bounding box.
Definition: BoundingBoxD.h:281
Array< 4, WeakPointer< Particle >, Particle * > ParticleQuad
Definition: base_types.h:184
bool get_bool_flag(std::string name)
VectorD< D > get_zero_vector_kd(int Di)
Return a dynamically sized vector of zeros.
Definition: VectorD.h:262
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.
Definition: __init__.py:11981
virtual ::IMP::VersionInfo get_version_info() const override
Get information about the module and version of the object.
Definition: Model.h:693
void remove_attribute(TypeKey attribute_key, ParticleIndex particle)
remove particle attribute with the specified key
Index< ParticleIndexTag > ParticleIndex
Definition: base_types.h:194
ParticlesTemp get_particles(Model *m, const ParticleIndexes &ps)
Get the particles from a list of indexes.
Key< 19 > Vector4DDerivKey
The type used to identify 4D vector attributes&derivatives in the Particles.
Definition: base_types.h:114
Key< 6 > ParticleIndexesKey
The type used to identify a particle attribute in the Particles.
Definition: base_types.h:64
Array< 3, WeakPointer< Particle >, Particle * > ParticleTriplet
Definition: base_types.h:181
ContainersTemp get_output_containers(const ModelObjectsTemp &mos)
Return all the output particles for a given ModelObject.
Base class for all samplers.
Definition: Sampler.h:31
void add_particle(RMF::FileHandle fh, Particle *hs)
virtual void clear_caches()
Definition: Object.h:270
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.
Definition: log.h:92
def get_sphere_derivatives_numpy
Get the model's XYZR attribute derivatives arrays as NumPy arrays.
Definition: __init__.py:6764
void set_deprecation_warnings(bool tf)
Toggle printing of warnings on using deprecated classes.
Vector3D get_centroid(const Vector3Ds &ps)
Return the centroid of a set of vectors.
Definition: Vector3D.h:67
def get_numpy
Get the model's attribute array for any type of Key k as a NumPy array.
Definition: __init__.py:6726
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.
Definition: generic.h:23
A base class for modifiers of ParticlePairsTemp.
Definition: PairModifier.h:31
void write_help(std::ostream &out=std::cerr)
Key< 2 > StringKey
The type used to identify string attributes in the Particles.
Definition: base_types.h:40
size_t get_int_flag(std::string name)
Key< 10 > FloatsKey
The type used to identify float vector attributes in the Particles.
Definition: base_types.h:60
void add_restraint(RMF::FileHandle fh, Restraint *hs)
Key< 17 > Vector3DDerivKey
The type used to identify 3D vector attributes&derivatives in the Particles.
Definition: base_types.h:106
Abstract class for scoring object(s) of type ParticleIndexQuad.
Definition: QuadScore.h:44
Base class for objects in a Model that depend on other objects.
Definition: ModelObject.h:28
boost::uint64_t get_random_seed()
Return the initial random seed.
Abstract predicate function.
Key< 3 > ParticleIndexKey
The type used to identify a particle attribute in the Particles.
Definition: base_types.h:44
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()
Definition: Object.h:274
Ints get_index(const ParticlesTemp &particles, const Subset &subset, const Subsets &excluded)
double get_radius_of_gyration(const Vector3Ds &ps)
Return the radius of gyration of a set of points.
Definition: Vector3D.h:76
Common base class for heavy weight IMP objects.
Definition: Object.h:111
ParticleIndexes get_particle_indexes(ParticlesTemp const &particles)
def deprecated_method
Python decorator to mark a method as deprecated.
Definition: __init__.py:11969
Abstract class for scoring object(s) of type ParticleIndex.
Base class for all optimizers.
Definition: Optimizer.h:48
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.
Definition: __init__.py:12046
def get_internal_coordinates_numpy
Get the model's internal coordinate array as a NumPy array.
Definition: __init__.py:6770
double get_distance(const VectorD< D > &v1, const VectorD< D > &v2)
Compute the distance between two vectors.
Definition: VectorD.h:195
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.
Definition: base_types.h:36
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.
A class to store a set of configurations of a model.
A shared container for Quads.
Definition: QuadContainer.h:39
def get_internal_coordinate_derivatives_numpy
Get the model's internal coordinate derivative array as a NumPy array.
Definition: __init__.py:6776
A shared container for Singletons.
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.
Definition: __init__.py:6758
Key< 4 > ObjectKey
The type used to identify an Object attribute.
Definition: base_types.h:48
Interface to specialized Particle types (e.g. atoms)
Definition: Decorator.h:119
IMP-specific subclass of argparse.ArgumentParser.
Definition: __init__.py:12027
def get_derivatives_numpy
Get the model's attribute derivatives array for key k as a NumPy array.
Definition: __init__.py:6742
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)
Definition: random_utils.h:138
def deprecated_object
Python decorator to mark a class as deprecated.
Definition: __init__.py:11953
ParticlesTemp get_input_particles(const ModelObjectsTemp &mos)
Return all the input particles for a given ModelObject.
Base class for optimizers that act on individual attributes.
void set_show_leaked_objects(bool tf)
Set whether to complain about objects not being properly cleaned up.
Abstract predicate function.
Definition: PairPredicate.h:31
bool get_deprecation_exceptions()
Get whether an exception is thrown when a deprecated method is used.
Represents a scoring function on the model.
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.
Warning for incomplete JAX support or different behavior of JAX code.
Definition: __init__.py:12188
Object(std::string name)
Construct an object with the given name.
Array< 2, WeakPointer< Particle >, Particle * > ParticlePair
Definition: base_types.h:175
Key< 5 > IntsKey
The type used to identify int attributes in the Particles.
Definition: base_types.h:56
virtual VersionInfo get_version_info() const
Get information about the module and version of the object.
Definition: Object.h:206
Restraints create_restraints(RMF::FileConstHandle fh, Model *m)
Shared optimizer state that is invoked upon commitment of new coordinates.
Abstract predicate function.
Abstract class to implement hierarchical methods.
Definition: Refiner.h:34
A base class for modifiers of ParticleTripletsTemp.
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)
Key< 18 > Vector4DKey
The type used to identify 4D vector attributes in the Particles.
Definition: base_types.h:110
def __init__
Constructor.
Definition: __init__.py:11762
double get_random_double_uniform()
Return a uniformly distributed double number in range [0..1)
Definition: random_utils.h:173
Key< 8 > ModelKey
The type used to identify data stored directly in the model.
Definition: base_types.h:78
A base class for modifiers of ParticleQuadsTemp.
Definition: QuadModifier.h:31
Key< 14 > SparseFloatKey
The type used to identify sparse float attributes in the Particles.
Definition: base_types.h:94
A shared container for Triplets.
def get_vector3ds_numpy
Get the model's attribute array for Vector3DKey k as a NumPy array.
Definition: __init__.py:6751
Vector3D get_vector_product(const Vector3D &p1, const Vector3D &p2)
Return the vector product (cross product) of two vectors.
Definition: Vector3D.h:31
Abstract class for scoring object(s) of type ParticleIndexTriplet.
Definition: TripletScore.h:44
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.
Abstract class for containers 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.
Definition: UnaryFunction.h:27
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.
Definition: exception.h:72
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.
A restraint is a term in an IMP ScoringFunction.
Definition: Restraint.h:56
Key< 12 > SparseStringKey
The type used to identify sparse string attributes in the Particles.
Definition: base_types.h:86
std::string get_copyright()
Get the IMP copyright notice.