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IMP Reference Guide  2.19.0
The Integrative Modeling Platform
multifit/__init__.py
1 # This file was automatically generated by SWIG (https://www.swig.org).
2 # Version 4.1.1
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 2007-2023 IMP Inventors. All rights reserved.
10 
11 from __future__ import print_function, division, absolute_import
12 
13 
14 
15 from sys import version_info as _swig_python_version_info
16 import _IMP_multifit
17 
18 try:
19  import builtins as __builtin__
20 except ImportError:
21  import __builtin__
22 
23 def _swig_repr(self):
24  try:
25  strthis = "proxy of " + self.this.__repr__()
26  except __builtin__.Exception:
27  strthis = ""
28  return "<%s.%s; %s >" % (self.__class__.__module__, self.__class__.__name__, strthis,)
29 
30 
31 def _swig_setattr_nondynamic_instance_variable(set):
32  def set_instance_attr(self, name, value):
33  if name == "this":
34  set(self, name, value)
35  elif name == "thisown":
36  self.this.own(value)
37  elif hasattr(self, name) and isinstance(getattr(type(self), name), property):
38  set(self, name, value)
39  else:
40  raise AttributeError("You cannot add instance attributes to %s" % self)
41  return set_instance_attr
42 
43 
44 def _swig_setattr_nondynamic_class_variable(set):
45  def set_class_attr(cls, name, value):
46  if hasattr(cls, name) and not isinstance(getattr(cls, name), property):
47  set(cls, name, value)
48  else:
49  raise AttributeError("You cannot add class attributes to %s" % cls)
50  return set_class_attr
51 
52 
53 def _swig_add_metaclass(metaclass):
54  """Class decorator for adding a metaclass to a SWIG wrapped class - a slimmed down version of six.add_metaclass"""
55  def wrapper(cls):
56  return metaclass(cls.__name__, cls.__bases__, cls.__dict__.copy())
57  return wrapper
58 
59 
60 class _SwigNonDynamicMeta(type):
61  """Meta class to enforce nondynamic attributes (no new attributes) for a class"""
62  __setattr__ = _swig_setattr_nondynamic_class_variable(type.__setattr__)
63 
64 
65 import weakref
66 
67 class IMP_MULTIFIT_SwigPyIterator(object):
68  r"""Proxy of C++ swig::IMP_MULTIFIT_SwigPyIterator class."""
69 
70  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
71 
72  def __init__(self, *args, **kwargs):
73  raise AttributeError("No constructor defined - class is abstract")
74  __repr__ = _swig_repr
75  __swig_destroy__ = _IMP_multifit.delete_IMP_MULTIFIT_SwigPyIterator
76 
77  def value(self):
78  r"""value(IMP_MULTIFIT_SwigPyIterator self) -> PyObject *"""
79  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_value(self)
80 
81  def incr(self, n=1):
82  r"""incr(IMP_MULTIFIT_SwigPyIterator self, size_t n=1) -> IMP_MULTIFIT_SwigPyIterator"""
83  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_incr(self, n)
84 
85  def decr(self, n=1):
86  r"""decr(IMP_MULTIFIT_SwigPyIterator self, size_t n=1) -> IMP_MULTIFIT_SwigPyIterator"""
87  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_decr(self, n)
88 
89  def distance(self, x):
90  r"""distance(IMP_MULTIFIT_SwigPyIterator self, IMP_MULTIFIT_SwigPyIterator x) -> ptrdiff_t"""
91  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_distance(self, x)
92 
93  def equal(self, x):
94  r"""equal(IMP_MULTIFIT_SwigPyIterator self, IMP_MULTIFIT_SwigPyIterator x) -> bool"""
95  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_equal(self, x)
96 
97  def copy(self):
98  r"""copy(IMP_MULTIFIT_SwigPyIterator self) -> IMP_MULTIFIT_SwigPyIterator"""
99  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_copy(self)
100 
101  def next(self):
102  r"""next(IMP_MULTIFIT_SwigPyIterator self) -> PyObject *"""
103  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_next(self)
104 
105  def __next__(self):
106  r"""__next__(IMP_MULTIFIT_SwigPyIterator self) -> PyObject *"""
107  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator___next__(self)
108 
109  def previous(self):
110  r"""previous(IMP_MULTIFIT_SwigPyIterator self) -> PyObject *"""
111  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_previous(self)
112 
113  def advance(self, n):
114  r"""advance(IMP_MULTIFIT_SwigPyIterator self, ptrdiff_t n) -> IMP_MULTIFIT_SwigPyIterator"""
115  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_advance(self, n)
116 
117  def __eq__(self, x):
118  r"""__eq__(IMP_MULTIFIT_SwigPyIterator self, IMP_MULTIFIT_SwigPyIterator x) -> bool"""
119  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator___eq__(self, x)
120 
121  def __ne__(self, x):
122  r"""__ne__(IMP_MULTIFIT_SwigPyIterator self, IMP_MULTIFIT_SwigPyIterator x) -> bool"""
123  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator___ne__(self, x)
124 
125  def __iadd__(self, n):
126  r"""__iadd__(IMP_MULTIFIT_SwigPyIterator self, ptrdiff_t n) -> IMP_MULTIFIT_SwigPyIterator"""
127  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator___iadd__(self, n)
128 
129  def __isub__(self, n):
130  r"""__isub__(IMP_MULTIFIT_SwigPyIterator self, ptrdiff_t n) -> IMP_MULTIFIT_SwigPyIterator"""
131  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator___isub__(self, n)
132 
133  def __add__(self, n):
134  r"""__add__(IMP_MULTIFIT_SwigPyIterator self, ptrdiff_t n) -> IMP_MULTIFIT_SwigPyIterator"""
135  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator___add__(self, n)
136 
137  def __sub__(self, *args):
138  r"""
139  __sub__(IMP_MULTIFIT_SwigPyIterator self, ptrdiff_t n) -> IMP_MULTIFIT_SwigPyIterator
140  __sub__(IMP_MULTIFIT_SwigPyIterator self, IMP_MULTIFIT_SwigPyIterator x) -> ptrdiff_t
141  """
142  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator___sub__(self, *args)
143  def __iter__(self):
144  return self
145 
146 # Register IMP_MULTIFIT_SwigPyIterator in _IMP_multifit:
147 _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_swigregister(IMP_MULTIFIT_SwigPyIterator)
148 
149 _value_types=[]
150 _object_types=[]
151 _raii_types=[]
152 _plural_types=[]
153 
154 IMP_DEBUG = _IMP_multifit.IMP_DEBUG
155 
156 IMP_RELEASE = _IMP_multifit.IMP_RELEASE
157 
158 IMP_SILENT = _IMP_multifit.IMP_SILENT
159 
160 IMP_PROGRESS = _IMP_multifit.IMP_PROGRESS
161 
162 IMP_TERSE = _IMP_multifit.IMP_TERSE
163 
164 IMP_VERBOSE = _IMP_multifit.IMP_VERBOSE
165 
166 IMP_MEMORY = _IMP_multifit.IMP_MEMORY
167 
168 IMP_NONE = _IMP_multifit.IMP_NONE
169 
170 IMP_USAGE = _IMP_multifit.IMP_USAGE
171 
172 IMP_INTERNAL = _IMP_multifit.IMP_INTERNAL
173 
174 IMP_KERNEL_HAS_LOG4CXX = _IMP_multifit.IMP_KERNEL_HAS_LOG4CXX
175 
176 IMP_COMPILER_HAS_CEREAL_RAW_POINTER = _IMP_multifit.IMP_COMPILER_HAS_CEREAL_RAW_POINTER
177 
178 IMP_COMPILER_HAS_DEBUG_VECTOR = _IMP_multifit.IMP_COMPILER_HAS_DEBUG_VECTOR
179 
180 IMP_COMPILER_HAS_RANDOM_SHUFFLE = _IMP_multifit.IMP_COMPILER_HAS_RANDOM_SHUFFLE
181 
182 IMP_COMPILER_HAS_THREE_WAY = _IMP_multifit.IMP_COMPILER_HAS_THREE_WAY
183 
184 IMP_KERNEL_HAS_BOOST_RANDOM = _IMP_multifit.IMP_KERNEL_HAS_BOOST_RANDOM
185 
186 IMP_KERNEL_HAS_NUMPY = _IMP_multifit.IMP_KERNEL_HAS_NUMPY
187 
188 IMP_KERNEL_HAS_GPERFTOOLS = _IMP_multifit.IMP_KERNEL_HAS_GPERFTOOLS
189 
190 IMP_KERNEL_HAS_TCMALLOC_HEAPCHECKER = _IMP_multifit.IMP_KERNEL_HAS_TCMALLOC_HEAPCHECKER
191 
192 IMP_KERNEL_HAS_TCMALLOC_HEAPPROFILER = _IMP_multifit.IMP_KERNEL_HAS_TCMALLOC_HEAPPROFILER
193 
194 IMPKERNEL_SHOW_WARNINGS = _IMP_multifit.IMPKERNEL_SHOW_WARNINGS
195 
196 
197 import sys
198 class _DirectorObjects(object):
199  """@internal Simple class to keep references to director objects
200  to prevent premature deletion."""
201  def __init__(self):
202  self._objects = []
203  def register(self, obj):
204  """Take a reference to a director object; will only work for
205  refcounted C++ classes"""
206  if hasattr(obj, 'get_ref_count'):
207  self._objects.append(obj)
208  def cleanup(self):
209  """Only drop our reference and allow cleanup by Python if no other
210  Python references exist (we hold 3 references: one in self._objects,
211  one in x, and one in the argument list for getrefcount) *and* no
212  other C++ references exist (the Python object always holds one)"""
213  objs = [x for x in self._objects if sys.getrefcount(x) > 3 \
214  or x.get_ref_count() > 1]
215 # Do in two steps so the references are kept until the end of the
216 # function (deleting references may trigger a fresh call to this method)
217  self._objects = objs
218  def get_object_count(self):
219  """Get number of director objects (useful for testing only)"""
220  return len(self._objects)
221 _director_objects = _DirectorObjects()
222 
223 class _ostream(object):
224  r"""Proxy of C++ std::ostream class."""
225 
226  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
227 
228  def __init__(self, *args, **kwargs):
229  raise AttributeError("No constructor defined")
230  __repr__ = _swig_repr
231 
232  def write(self, osa_buf):
233  r"""write(_ostream self, char const * osa_buf)"""
234  return _IMP_multifit._ostream_write(self, osa_buf)
235 
236 # Register _ostream in _IMP_multifit:
237 _IMP_multifit._ostream_swigregister(_ostream)
238 IMP_C_OPEN_BINARY = _IMP_multifit.IMP_C_OPEN_BINARY
239 
240 import IMP
241 IMP_CGAL_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_CGAL_HAS_BOOST_FILESYSTEM
242 
243 IMP_CGAL_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_CGAL_HAS_BOOST_PROGRAMOPTIONS
244 
245 IMP_CGAL_HAS_BOOST_RANDOM = _IMP_multifit.IMP_CGAL_HAS_BOOST_RANDOM
246 
247 IMP_CGAL_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_CGAL_HAS_BOOST_SYSTEM
248 
249 IMP_CGAL_HAS_NUMPY = _IMP_multifit.IMP_CGAL_HAS_NUMPY
250 
251 IMPCGAL_SHOW_WARNINGS = _IMP_multifit.IMPCGAL_SHOW_WARNINGS
252 
253 import IMP.cgal
254 IMP_ALGEBRA_HAS_IMP_CGAL = _IMP_multifit.IMP_ALGEBRA_HAS_IMP_CGAL
255 
256 IMP_ALGEBRA_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_ALGEBRA_HAS_BOOST_FILESYSTEM
257 
258 IMP_ALGEBRA_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_ALGEBRA_HAS_BOOST_PROGRAMOPTIONS
259 
260 IMP_ALGEBRA_HAS_BOOST_RANDOM = _IMP_multifit.IMP_ALGEBRA_HAS_BOOST_RANDOM
261 
262 IMP_ALGEBRA_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_ALGEBRA_HAS_BOOST_SYSTEM
263 
264 IMP_ALGEBRA_HAS_CGAL = _IMP_multifit.IMP_ALGEBRA_HAS_CGAL
265 
266 IMP_ALGEBRA_HAS_NUMPY = _IMP_multifit.IMP_ALGEBRA_HAS_NUMPY
267 
268 IMP_ALGEBRA_HAS_ANN = _IMP_multifit.IMP_ALGEBRA_HAS_ANN
269 
270 IMPALGEBRA_SHOW_WARNINGS = _IMP_multifit.IMPALGEBRA_SHOW_WARNINGS
271 
272 import IMP.algebra
273 IMP_DISPLAY_HAS_IMP_CGAL = _IMP_multifit.IMP_DISPLAY_HAS_IMP_CGAL
274 
275 IMP_DISPLAY_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_DISPLAY_HAS_BOOST_FILESYSTEM
276 
277 IMP_DISPLAY_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_DISPLAY_HAS_BOOST_PROGRAMOPTIONS
278 
279 IMP_DISPLAY_HAS_BOOST_RANDOM = _IMP_multifit.IMP_DISPLAY_HAS_BOOST_RANDOM
280 
281 IMP_DISPLAY_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_DISPLAY_HAS_BOOST_SYSTEM
282 
283 IMP_DISPLAY_HAS_CGAL = _IMP_multifit.IMP_DISPLAY_HAS_CGAL
284 
285 IMP_DISPLAY_HAS_NUMPY = _IMP_multifit.IMP_DISPLAY_HAS_NUMPY
286 
287 IMPDISPLAY_SHOW_WARNINGS = _IMP_multifit.IMPDISPLAY_SHOW_WARNINGS
288 
289 import IMP.display
290 IMP_SCORE_FUNCTOR_HAS_IMP_CGAL = _IMP_multifit.IMP_SCORE_FUNCTOR_HAS_IMP_CGAL
291 
292 IMP_SCORE_FUNCTOR_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_SCORE_FUNCTOR_HAS_BOOST_FILESYSTEM
293 
294 IMP_SCORE_FUNCTOR_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_SCORE_FUNCTOR_HAS_BOOST_PROGRAMOPTIONS
295 
296 IMP_SCORE_FUNCTOR_HAS_BOOST_RANDOM = _IMP_multifit.IMP_SCORE_FUNCTOR_HAS_BOOST_RANDOM
297 
298 IMP_SCORE_FUNCTOR_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_SCORE_FUNCTOR_HAS_BOOST_SYSTEM
299 
300 IMP_SCORE_FUNCTOR_HAS_CGAL = _IMP_multifit.IMP_SCORE_FUNCTOR_HAS_CGAL
301 
302 IMP_SCORE_FUNCTOR_HAS_HDF5 = _IMP_multifit.IMP_SCORE_FUNCTOR_HAS_HDF5
303 
304 IMP_SCORE_FUNCTOR_HAS_NUMPY = _IMP_multifit.IMP_SCORE_FUNCTOR_HAS_NUMPY
305 
306 IMPSCOREFUNCTOR_SHOW_WARNINGS = _IMP_multifit.IMPSCOREFUNCTOR_SHOW_WARNINGS
307 
308 import IMP.score_functor
309 IMP_STATISTICS_HAS_IMP_CGAL = _IMP_multifit.IMP_STATISTICS_HAS_IMP_CGAL
310 
311 IMP_STATISTICS_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_STATISTICS_HAS_BOOST_FILESYSTEM
312 
313 IMP_STATISTICS_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_STATISTICS_HAS_BOOST_PROGRAMOPTIONS
314 
315 IMP_STATISTICS_HAS_BOOST_RANDOM = _IMP_multifit.IMP_STATISTICS_HAS_BOOST_RANDOM
316 
317 IMP_STATISTICS_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_STATISTICS_HAS_BOOST_SYSTEM
318 
319 IMP_STATISTICS_HAS_CGAL = _IMP_multifit.IMP_STATISTICS_HAS_CGAL
320 
321 IMP_STATISTICS_HAS_NUMPY = _IMP_multifit.IMP_STATISTICS_HAS_NUMPY
322 
323 IMPSTATISTICS_SHOW_WARNINGS = _IMP_multifit.IMPSTATISTICS_SHOW_WARNINGS
324 
325 import IMP.statistics
326 IMP_CORE_HAS_IMP_CGAL = _IMP_multifit.IMP_CORE_HAS_IMP_CGAL
327 
328 IMP_CORE_HAS_IMP_KERNEL = _IMP_multifit.IMP_CORE_HAS_IMP_KERNEL
329 
330 IMP_CORE_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_CORE_HAS_BOOST_FILESYSTEM
331 
332 IMP_CORE_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_CORE_HAS_BOOST_PROGRAMOPTIONS
333 
334 IMP_CORE_HAS_BOOST_RANDOM = _IMP_multifit.IMP_CORE_HAS_BOOST_RANDOM
335 
336 IMP_CORE_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_CORE_HAS_BOOST_SYSTEM
337 
338 IMP_CORE_HAS_CGAL = _IMP_multifit.IMP_CORE_HAS_CGAL
339 
340 IMP_CORE_HAS_HDF5 = _IMP_multifit.IMP_CORE_HAS_HDF5
341 
342 IMP_CORE_HAS_NUMPY = _IMP_multifit.IMP_CORE_HAS_NUMPY
343 
344 IMPCORE_SHOW_WARNINGS = _IMP_multifit.IMPCORE_SHOW_WARNINGS
345 
346 import IMP.core
347 IMP_CONTAINER_HAS_IMP_ALGEBRA = _IMP_multifit.IMP_CONTAINER_HAS_IMP_ALGEBRA
348 
349 IMP_CONTAINER_HAS_IMP_CGAL = _IMP_multifit.IMP_CONTAINER_HAS_IMP_CGAL
350 
351 IMP_CONTAINER_HAS_IMP_DISPLAY = _IMP_multifit.IMP_CONTAINER_HAS_IMP_DISPLAY
352 
353 IMP_CONTAINER_HAS_IMP_KERNEL = _IMP_multifit.IMP_CONTAINER_HAS_IMP_KERNEL
354 
355 IMP_CONTAINER_HAS_IMP_SCORE_FUNCTOR = _IMP_multifit.IMP_CONTAINER_HAS_IMP_SCORE_FUNCTOR
356 
357 IMP_CONTAINER_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_CONTAINER_HAS_BOOST_FILESYSTEM
358 
359 IMP_CONTAINER_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_CONTAINER_HAS_BOOST_PROGRAMOPTIONS
360 
361 IMP_CONTAINER_HAS_BOOST_RANDOM = _IMP_multifit.IMP_CONTAINER_HAS_BOOST_RANDOM
362 
363 IMP_CONTAINER_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_CONTAINER_HAS_BOOST_SYSTEM
364 
365 IMP_CONTAINER_HAS_CGAL = _IMP_multifit.IMP_CONTAINER_HAS_CGAL
366 
367 IMP_CONTAINER_HAS_HDF5 = _IMP_multifit.IMP_CONTAINER_HAS_HDF5
368 
369 IMP_CONTAINER_HAS_NUMPY = _IMP_multifit.IMP_CONTAINER_HAS_NUMPY
370 
371 IMP_CONTAINER_HAS_PYTHON_IHM = _IMP_multifit.IMP_CONTAINER_HAS_PYTHON_IHM
372 
373 IMP_CONTAINER_HAS_GOOGLE_DENSE_HASH_MAP = _IMP_multifit.IMP_CONTAINER_HAS_GOOGLE_DENSE_HASH_MAP
374 
375 IMP_CONTAINER_HAS_ROBIN_MAP = _IMP_multifit.IMP_CONTAINER_HAS_ROBIN_MAP
376 
377 IMPCONTAINER_SHOW_WARNINGS = _IMP_multifit.IMPCONTAINER_SHOW_WARNINGS
378 
379 import IMP.container
380 IMP_ATOM_HAS_IMP_CGAL = _IMP_multifit.IMP_ATOM_HAS_IMP_CGAL
381 
382 IMP_ATOM_HAS_IMP_KERNEL = _IMP_multifit.IMP_ATOM_HAS_IMP_KERNEL
383 
384 IMP_ATOM_HAS_IMP_SCORE_FUNCTOR = _IMP_multifit.IMP_ATOM_HAS_IMP_SCORE_FUNCTOR
385 
386 IMP_ATOM_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_ATOM_HAS_BOOST_PROGRAMOPTIONS
387 
388 IMP_ATOM_HAS_BOOST_RANDOM = _IMP_multifit.IMP_ATOM_HAS_BOOST_RANDOM
389 
390 IMP_ATOM_HAS_BOOST_REGEX = _IMP_multifit.IMP_ATOM_HAS_BOOST_REGEX
391 
392 IMP_ATOM_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_ATOM_HAS_BOOST_SYSTEM
393 
394 IMP_ATOM_HAS_CGAL = _IMP_multifit.IMP_ATOM_HAS_CGAL
395 
396 IMP_ATOM_HAS_HDF5 = _IMP_multifit.IMP_ATOM_HAS_HDF5
397 
398 IMP_ATOM_HAS_NUMPY = _IMP_multifit.IMP_ATOM_HAS_NUMPY
399 
400 IMP_ATOM_HAS_PYTHON_IHM = _IMP_multifit.IMP_ATOM_HAS_PYTHON_IHM
401 
402 IMPATOM_SHOW_WARNINGS = _IMP_multifit.IMPATOM_SHOW_WARNINGS
403 
404 IMP_ATOM_TYPE_INDEX = _IMP_multifit.IMP_ATOM_TYPE_INDEX
405 
406 IMP_RESIDUE_TYPE_INDEX = _IMP_multifit.IMP_RESIDUE_TYPE_INDEX
407 
408 IMP_HIERARCHY_TYPE_INDEX = _IMP_multifit.IMP_HIERARCHY_TYPE_INDEX
409 
410 IMP_CHAIN_TYPE_INDEX = _IMP_multifit.IMP_CHAIN_TYPE_INDEX
411 
412 import IMP.atom
413 IMP_EM_HAS_IMP_CGAL = _IMP_multifit.IMP_EM_HAS_IMP_CGAL
414 
415 IMP_EM_HAS_IMP_CONTAINER = _IMP_multifit.IMP_EM_HAS_IMP_CONTAINER
416 
417 IMP_EM_HAS_IMP_DISPLAY = _IMP_multifit.IMP_EM_HAS_IMP_DISPLAY
418 
419 IMP_EM_HAS_IMP_SCORE_FUNCTOR = _IMP_multifit.IMP_EM_HAS_IMP_SCORE_FUNCTOR
420 
421 IMP_EM_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_EM_HAS_BOOST_FILESYSTEM
422 
423 IMP_EM_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_EM_HAS_BOOST_PROGRAMOPTIONS
424 
425 IMP_EM_HAS_BOOST_RANDOM = _IMP_multifit.IMP_EM_HAS_BOOST_RANDOM
426 
427 IMP_EM_HAS_BOOST_REGEX = _IMP_multifit.IMP_EM_HAS_BOOST_REGEX
428 
429 IMP_EM_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_EM_HAS_BOOST_SYSTEM
430 
431 IMP_EM_HAS_CGAL = _IMP_multifit.IMP_EM_HAS_CGAL
432 
433 IMP_EM_HAS_HDF5 = _IMP_multifit.IMP_EM_HAS_HDF5
434 
435 IMP_EM_HAS_NUMPY = _IMP_multifit.IMP_EM_HAS_NUMPY
436 
437 IMP_EM_HAS_PYTHON_IHM = _IMP_multifit.IMP_EM_HAS_PYTHON_IHM
438 
439 IMPEM_SHOW_WARNINGS = _IMP_multifit.IMPEM_SHOW_WARNINGS
440 
441 import IMP.em
442 IMP_SAXS_HAS_IMP_CGAL = _IMP_multifit.IMP_SAXS_HAS_IMP_CGAL
443 
444 IMP_SAXS_HAS_IMP_CONTAINER = _IMP_multifit.IMP_SAXS_HAS_IMP_CONTAINER
445 
446 IMP_SAXS_HAS_IMP_DISPLAY = _IMP_multifit.IMP_SAXS_HAS_IMP_DISPLAY
447 
448 IMP_SAXS_HAS_IMP_KERNEL = _IMP_multifit.IMP_SAXS_HAS_IMP_KERNEL
449 
450 IMP_SAXS_HAS_IMP_SCORE_FUNCTOR = _IMP_multifit.IMP_SAXS_HAS_IMP_SCORE_FUNCTOR
451 
452 IMP_SAXS_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_SAXS_HAS_BOOST_FILESYSTEM
453 
454 IMP_SAXS_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_SAXS_HAS_BOOST_PROGRAMOPTIONS
455 
456 IMP_SAXS_HAS_BOOST_RANDOM = _IMP_multifit.IMP_SAXS_HAS_BOOST_RANDOM
457 
458 IMP_SAXS_HAS_BOOST_REGEX = _IMP_multifit.IMP_SAXS_HAS_BOOST_REGEX
459 
460 IMP_SAXS_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_SAXS_HAS_BOOST_SYSTEM
461 
462 IMP_SAXS_HAS_CGAL = _IMP_multifit.IMP_SAXS_HAS_CGAL
463 
464 IMP_SAXS_HAS_HDF5 = _IMP_multifit.IMP_SAXS_HAS_HDF5
465 
466 IMP_SAXS_HAS_NUMPY = _IMP_multifit.IMP_SAXS_HAS_NUMPY
467 
468 IMP_SAXS_HAS_PYTHON_IHM = _IMP_multifit.IMP_SAXS_HAS_PYTHON_IHM
469 
470 IMPSAXS_SHOW_WARNINGS = _IMP_multifit.IMPSAXS_SHOW_WARNINGS
471 
472 import IMP.saxs
473 IMP_ISD_HAS_IMP_CGAL = _IMP_multifit.IMP_ISD_HAS_IMP_CGAL
474 
475 IMP_ISD_HAS_IMP_DISPLAY = _IMP_multifit.IMP_ISD_HAS_IMP_DISPLAY
476 
477 IMP_ISD_HAS_IMP_SCORE_FUNCTOR = _IMP_multifit.IMP_ISD_HAS_IMP_SCORE_FUNCTOR
478 
479 IMP_ISD_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_ISD_HAS_BOOST_FILESYSTEM
480 
481 IMP_ISD_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_ISD_HAS_BOOST_PROGRAMOPTIONS
482 
483 IMP_ISD_HAS_BOOST_RANDOM = _IMP_multifit.IMP_ISD_HAS_BOOST_RANDOM
484 
485 IMP_ISD_HAS_BOOST_REGEX = _IMP_multifit.IMP_ISD_HAS_BOOST_REGEX
486 
487 IMP_ISD_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_ISD_HAS_BOOST_SYSTEM
488 
489 IMP_ISD_HAS_CGAL = _IMP_multifit.IMP_ISD_HAS_CGAL
490 
491 IMP_ISD_HAS_HDF5 = _IMP_multifit.IMP_ISD_HAS_HDF5
492 
493 IMP_ISD_HAS_NUMPY = _IMP_multifit.IMP_ISD_HAS_NUMPY
494 
495 IMP_ISD_HAS_PYTHON_IHM = _IMP_multifit.IMP_ISD_HAS_PYTHON_IHM
496 
497 IMPISD_SHOW_WARNINGS = _IMP_multifit.IMPISD_SHOW_WARNINGS
498 
499 import IMP.isd
500 IMP_RMF_HAS_IMP_CGAL = _IMP_multifit.IMP_RMF_HAS_IMP_CGAL
501 
502 IMP_RMF_HAS_IMP_EM = _IMP_multifit.IMP_RMF_HAS_IMP_EM
503 
504 IMP_RMF_HAS_IMP_SAXS = _IMP_multifit.IMP_RMF_HAS_IMP_SAXS
505 
506 IMP_RMF_HAS_IMP_SCORE_FUNCTOR = _IMP_multifit.IMP_RMF_HAS_IMP_SCORE_FUNCTOR
507 
508 IMP_RMF_HAS_IMP_STATISTICS = _IMP_multifit.IMP_RMF_HAS_IMP_STATISTICS
509 
510 IMP_RMF_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_RMF_HAS_BOOST_FILESYSTEM
511 
512 IMP_RMF_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_RMF_HAS_BOOST_PROGRAMOPTIONS
513 
514 IMP_RMF_HAS_BOOST_RANDOM = _IMP_multifit.IMP_RMF_HAS_BOOST_RANDOM
515 
516 IMP_RMF_HAS_BOOST_REGEX = _IMP_multifit.IMP_RMF_HAS_BOOST_REGEX
517 
518 IMP_RMF_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_RMF_HAS_BOOST_SYSTEM
519 
520 IMP_RMF_HAS_CGAL = _IMP_multifit.IMP_RMF_HAS_CGAL
521 
522 IMP_RMF_HAS_HDF5 = _IMP_multifit.IMP_RMF_HAS_HDF5
523 
524 IMP_RMF_HAS_NUMPY = _IMP_multifit.IMP_RMF_HAS_NUMPY
525 
526 IMP_RMF_HAS_PYTHON_IHM = _IMP_multifit.IMP_RMF_HAS_PYTHON_IHM
527 
528 IMPRMF_SHOW_WARNINGS = _IMP_multifit.IMPRMF_SHOW_WARNINGS
529 
530 import IMP.rmf
531 import RMF
532 IMP_DOMINO_HAS_IMP_ATOM = _IMP_multifit.IMP_DOMINO_HAS_IMP_ATOM
533 
534 IMP_DOMINO_HAS_IMP_CGAL = _IMP_multifit.IMP_DOMINO_HAS_IMP_CGAL
535 
536 IMP_DOMINO_HAS_IMP_EM = _IMP_multifit.IMP_DOMINO_HAS_IMP_EM
537 
538 IMP_DOMINO_HAS_IMP_ISD = _IMP_multifit.IMP_DOMINO_HAS_IMP_ISD
539 
540 IMP_DOMINO_HAS_IMP_KERNEL = _IMP_multifit.IMP_DOMINO_HAS_IMP_KERNEL
541 
542 IMP_DOMINO_HAS_IMP_RMF = _IMP_multifit.IMP_DOMINO_HAS_IMP_RMF
543 
544 IMP_DOMINO_HAS_IMP_SAXS = _IMP_multifit.IMP_DOMINO_HAS_IMP_SAXS
545 
546 IMP_DOMINO_HAS_IMP_SCORE_FUNCTOR = _IMP_multifit.IMP_DOMINO_HAS_IMP_SCORE_FUNCTOR
547 
548 IMP_DOMINO_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_DOMINO_HAS_BOOST_FILESYSTEM
549 
550 IMP_DOMINO_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_DOMINO_HAS_BOOST_PROGRAMOPTIONS
551 
552 IMP_DOMINO_HAS_BOOST_RANDOM = _IMP_multifit.IMP_DOMINO_HAS_BOOST_RANDOM
553 
554 IMP_DOMINO_HAS_BOOST_REGEX = _IMP_multifit.IMP_DOMINO_HAS_BOOST_REGEX
555 
556 IMP_DOMINO_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_DOMINO_HAS_BOOST_SYSTEM
557 
558 IMP_DOMINO_HAS_CGAL = _IMP_multifit.IMP_DOMINO_HAS_CGAL
559 
560 IMP_DOMINO_HAS_HDF5 = _IMP_multifit.IMP_DOMINO_HAS_HDF5
561 
562 IMP_DOMINO_HAS_NUMPY = _IMP_multifit.IMP_DOMINO_HAS_NUMPY
563 
564 IMP_DOMINO_HAS_RMF = _IMP_multifit.IMP_DOMINO_HAS_RMF
565 
566 IMP_DOMINO_HAS_PYTHON_IHM = _IMP_multifit.IMP_DOMINO_HAS_PYTHON_IHM
567 
568 IMPDOMINO_SHOW_WARNINGS = _IMP_multifit.IMPDOMINO_SHOW_WARNINGS
569 
570 import RMF_HDF5
571 import IMP.domino
572 IMP_MULTIFIT_HAS_IMP_CGAL = _IMP_multifit.IMP_MULTIFIT_HAS_IMP_CGAL
573 
574 IMP_MULTIFIT_HAS_IMP_CONTAINER = _IMP_multifit.IMP_MULTIFIT_HAS_IMP_CONTAINER
575 
576 IMP_MULTIFIT_HAS_IMP_DISPLAY = _IMP_multifit.IMP_MULTIFIT_HAS_IMP_DISPLAY
577 
578 IMP_MULTIFIT_HAS_IMP_ISD = _IMP_multifit.IMP_MULTIFIT_HAS_IMP_ISD
579 
580 IMP_MULTIFIT_HAS_IMP_KERNEL = _IMP_multifit.IMP_MULTIFIT_HAS_IMP_KERNEL
581 
582 IMP_MULTIFIT_HAS_IMP_RMF = _IMP_multifit.IMP_MULTIFIT_HAS_IMP_RMF
583 
584 IMP_MULTIFIT_HAS_IMP_SAXS = _IMP_multifit.IMP_MULTIFIT_HAS_IMP_SAXS
585 
586 IMP_MULTIFIT_HAS_IMP_SCORE_FUNCTOR = _IMP_multifit.IMP_MULTIFIT_HAS_IMP_SCORE_FUNCTOR
587 
588 IMP_MULTIFIT_HAS_BOOST_GRAPH = _IMP_multifit.IMP_MULTIFIT_HAS_BOOST_GRAPH
589 
590 IMP_MULTIFIT_HAS_BOOST_RANDOM = _IMP_multifit.IMP_MULTIFIT_HAS_BOOST_RANDOM
591 
592 IMP_MULTIFIT_HAS_BOOST_REGEX = _IMP_multifit.IMP_MULTIFIT_HAS_BOOST_REGEX
593 
594 IMP_MULTIFIT_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_MULTIFIT_HAS_BOOST_SYSTEM
595 
596 IMP_MULTIFIT_HAS_CGAL = _IMP_multifit.IMP_MULTIFIT_HAS_CGAL
597 
598 IMP_MULTIFIT_HAS_HDF5 = _IMP_multifit.IMP_MULTIFIT_HAS_HDF5
599 
600 IMP_MULTIFIT_HAS_NUMPY = _IMP_multifit.IMP_MULTIFIT_HAS_NUMPY
601 
602 IMP_MULTIFIT_HAS_RMF = _IMP_multifit.IMP_MULTIFIT_HAS_RMF
603 
604 IMP_MULTIFIT_HAS_PYTHON_IHM = _IMP_multifit.IMP_MULTIFIT_HAS_PYTHON_IHM
605 
606 IMPMULTIFIT_SHOW_WARNINGS = _IMP_multifit.IMPMULTIFIT_SHOW_WARNINGS
607 
608 
609 _object_types.append("RadiusOfGyrationRestraint")
610 
611 
612 def _object_cast_to_RadiusOfGyrationRestraint(o):
613  r"""_object_cast_to_RadiusOfGyrationRestraint(Object o) -> RadiusOfGyrationRestraint"""
614  return _IMP_multifit._object_cast_to_RadiusOfGyrationRestraint(o)
615 
616 _object_types.append("ComponentHeader")
617 
618 
619 def _object_cast_to_ComponentHeader(o):
620  r"""_object_cast_to_ComponentHeader(Object o) -> ComponentHeader"""
621  return _IMP_multifit._object_cast_to_ComponentHeader(o)
622 
623 _object_types.append("AssemblyHeader")
624 
625 
626 def _object_cast_to_AssemblyHeader(o):
627  r"""_object_cast_to_AssemblyHeader(Object o) -> AssemblyHeader"""
628  return _IMP_multifit._object_cast_to_AssemblyHeader(o)
629 
630 _object_types.append("SettingsData")
631 
632 
633 def _object_cast_to_SettingsData(o):
634  r"""_object_cast_to_SettingsData(Object o) -> SettingsData"""
635  return _IMP_multifit._object_cast_to_SettingsData(o)
636 
637 _object_types.append("WeightedExcludedVolumeRestraint")
638 
639 
640 def _object_cast_to_WeightedExcludedVolumeRestraint(o):
641  r"""_object_cast_to_WeightedExcludedVolumeRestraint(Object o) -> WeightedExcludedVolumeRestraint"""
642  return _IMP_multifit._object_cast_to_WeightedExcludedVolumeRestraint(o)
643 
644 _object_types.append("ComplementarityRestraint")
645 
646 
647 def _object_cast_to_ComplementarityRestraint(o):
648  r"""_object_cast_to_ComplementarityRestraint(Object o) -> ComplementarityRestraint"""
649  return _IMP_multifit._object_cast_to_ComplementarityRestraint(o)
650 
651 ProteinRecordDataList=list
652 _plural_types.append("ProteinRecordDataList")
653 _value_types.append("ProteinRecordData")
654 
655 
656 FittingSolutionRecords=list
657 _plural_types.append("FittingSolutionRecords")
658 _value_types.append("FittingSolutionRecord")
659 
660 
661 AnchorsDataList=list
662 _plural_types.append("AnchorsDataList")
663 _value_types.append("AnchorsData")
664 
665 
666 DominoParamsList=list
667 _plural_types.append("DominoParamsList")
668 _value_types.append("DominoParams")
669 
670 
671 ComplementarityParamsList=list
672 _plural_types.append("ComplementarityParamsList")
673 _value_types.append("ComplementarityParams")
674 
675 
676 XlinkParamsList=list
677 _plural_types.append("XlinkParamsList")
678 _value_types.append("XlinkParams")
679 
680 
681 ConnectivityParamsList=list
682 _plural_types.append("ConnectivityParamsList")
683 _value_types.append("ConnectivityParams")
684 
685 
686 FragmentsParamsList=list
687 _plural_types.append("FragmentsParamsList")
688 _value_types.append("FragmentsParams")
689 
690 
691 RogParamsList=list
692 _plural_types.append("RogParamsList")
693 _value_types.append("RogParams")
694 
695 
696 EVParamsList=list
697 _plural_types.append("EVParamsList")
698 _value_types.append("EVParams")
699 
700 
701 FiltersParamsList=list
702 _plural_types.append("FiltersParamsList")
703 _value_types.append("FiltersParams")
704 
705 
706 AlignmentParamsList=list
707 _plural_types.append("AlignmentParamsList")
708 _value_types.append("AlignmentParams")
709 
710 
711 FittingParamsList=list
712 _plural_types.append("FittingParamsList")
713 _value_types.append("FittingParams")
714 
715 
716 ProteinsAnchorsSamplingSpaces=list
717 _plural_types.append("ProteinsAnchorsSamplingSpaces")
718 _value_types.append("ProteinsAnchorsSamplingSpace")
719 
720 
721 _object_types.append("ProteomicsData")
722 
723 
724 def _object_cast_to_ProteomicsData(o):
725  r"""_object_cast_to_ProteomicsData(Object o) -> ProteomicsData"""
726  return _IMP_multifit._object_cast_to_ProteomicsData(o)
727 
728 _object_types.append("FFTFitting")
729 
730 
731 def _object_cast_to_FFTFitting(o):
732  r"""_object_cast_to_FFTFitting(Object o) -> FFTFitting"""
733  return _IMP_multifit._object_cast_to_FFTFitting(o)
734 
735 _object_types.append("FFTFittingOutput")
736 
737 
738 def _object_cast_to_FFTFittingOutput(o):
739  r"""_object_cast_to_FFTFittingOutput(Object o) -> FFTFittingOutput"""
740  return _IMP_multifit._object_cast_to_FFTFittingOutput(o)
741 
742 _object_types.append("ProbabilisticAnchorGraph")
743 
744 
745 def _object_cast_to_ProbabilisticAnchorGraph(o):
746  r"""_object_cast_to_ProbabilisticAnchorGraph(Object o) -> ProbabilisticAnchorGraph"""
747  return _IMP_multifit._object_cast_to_ProbabilisticAnchorGraph(o)
748 
749 _object_types.append("Ensemble")
750 
751 
752 def _object_cast_to_Ensemble(o):
753  r"""_object_cast_to_Ensemble(Object o) -> Ensemble"""
754  return _IMP_multifit._object_cast_to_Ensemble(o)
755 
756 _object_types.append("ProteomicsEMAlignmentAtomic")
757 
758 
759 def _object_cast_to_ProteomicsEMAlignmentAtomic(o):
760  r"""_object_cast_to_ProteomicsEMAlignmentAtomic(Object o) -> ProteomicsEMAlignmentAtomic"""
761  return _IMP_multifit._object_cast_to_ProteomicsEMAlignmentAtomic(o)
762 
763 _object_types.append("RigidLeavesRefiner")
764 
765 
766 def _object_cast_to_RigidLeavesRefiner(o):
767  r"""_object_cast_to_RigidLeavesRefiner(Object o) -> RigidLeavesRefiner"""
768  return _IMP_multifit._object_cast_to_RigidLeavesRefiner(o)
769 
770 def add_surface_index(*args):
771  r"""add_surface_index(Hierarchy mhd, IMP::Float apix, FloatKey shell_key=FloatKey("surf_ind"), FloatKey radius_key=IMP::core::XYZR::get_radius_key(), FloatKey weight_key=IMP::atom::Mass::get_mass_key())"""
772  return _IMP_multifit.add_surface_index(*args)
773 
775  r"""create_weighted_excluded_volume_restraint(RigidBody rb1, RigidBody rb2, FloatKey shell_key=FloatKey("surf_ind")) -> Restraint"""
776  return _IMP_multifit.create_weighted_excluded_volume_restraint(*args)
777 class FittingSolutionRecord(object):
778  r"""Proxy of C++ IMP::multifit::FittingSolutionRecord class."""
779 
780  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
781 
782  def __init__(self):
783  r"""__init__(FittingSolutionRecord self) -> FittingSolutionRecord"""
784  _IMP_multifit.FittingSolutionRecord_swiginit(self, _IMP_multifit.new_FittingSolutionRecord())
785 
786  def get_index(self):
787  r"""get_index(FittingSolutionRecord self) -> unsigned int"""
788  return _IMP_multifit.FittingSolutionRecord_get_index(self)
789 
790  def set_index(self, new_ind):
791  r"""set_index(FittingSolutionRecord self, unsigned int new_ind)"""
792  return _IMP_multifit.FittingSolutionRecord_set_index(self, new_ind)
793 
794  def get_solution_filename(self):
795  r"""get_solution_filename(FittingSolutionRecord self) -> std::string"""
796  return _IMP_multifit.FittingSolutionRecord_get_solution_filename(self)
797 
798  def set_solution_filename(self, sol_fn):
799  r"""set_solution_filename(FittingSolutionRecord self, std::string sol_fn)"""
800  return _IMP_multifit.FittingSolutionRecord_set_solution_filename(self, sol_fn)
801 
802  def get_fit_transformation(self):
803  r"""get_fit_transformation(FittingSolutionRecord self) -> Transformation3D"""
804  return _IMP_multifit.FittingSolutionRecord_get_fit_transformation(self)
805 
806  def set_fit_transformation(self, t):
807  r"""set_fit_transformation(FittingSolutionRecord self, Transformation3D t)"""
808  return _IMP_multifit.FittingSolutionRecord_set_fit_transformation(self, t)
809 
810  def get_match_size(self):
811  r"""get_match_size(FittingSolutionRecord self) -> unsigned int"""
812  return _IMP_multifit.FittingSolutionRecord_get_match_size(self)
813 
814  def set_match_size(self, match_size):
815  r"""set_match_size(FittingSolutionRecord self, unsigned int match_size)"""
816  return _IMP_multifit.FittingSolutionRecord_set_match_size(self, match_size)
817 
818  def get_match_average_distance(self):
819  r"""get_match_average_distance(FittingSolutionRecord self) -> IMP::Float"""
820  return _IMP_multifit.FittingSolutionRecord_get_match_average_distance(self)
821 
822  def set_match_average_distance(self, match_avg_dist):
823  r"""set_match_average_distance(FittingSolutionRecord self, IMP::Float match_avg_dist)"""
824  return _IMP_multifit.FittingSolutionRecord_set_match_average_distance(self, match_avg_dist)
825 
826  def get_fitting_score(self):
827  r"""get_fitting_score(FittingSolutionRecord self) -> IMP::Float"""
828  return _IMP_multifit.FittingSolutionRecord_get_fitting_score(self)
829 
830  def set_fitting_score(self, fit_score):
831  r"""set_fitting_score(FittingSolutionRecord self, IMP::Float fit_score)"""
832  return _IMP_multifit.FittingSolutionRecord_set_fitting_score(self, fit_score)
833 
834  def get_rmsd_to_reference(self):
835  r"""get_rmsd_to_reference(FittingSolutionRecord self) -> IMP::Float"""
836  return _IMP_multifit.FittingSolutionRecord_get_rmsd_to_reference(self)
837 
838  def set_rmsd_to_reference(self, rmsd_to_ref):
839  r"""set_rmsd_to_reference(FittingSolutionRecord self, IMP::Float rmsd_to_ref)"""
840  return _IMP_multifit.FittingSolutionRecord_set_rmsd_to_reference(self, rmsd_to_ref)
841 
842  def get_dock_transformation(self):
843  r"""get_dock_transformation(FittingSolutionRecord self) -> Transformation3D"""
844  return _IMP_multifit.FittingSolutionRecord_get_dock_transformation(self)
845 
846  def set_dock_transformation(self, t):
847  r"""set_dock_transformation(FittingSolutionRecord self, Transformation3D t)"""
848  return _IMP_multifit.FittingSolutionRecord_set_dock_transformation(self, t)
849 
850  def get_envelope_penetration_score(self):
851  r"""get_envelope_penetration_score(FittingSolutionRecord self) -> IMP::Float"""
852  return _IMP_multifit.FittingSolutionRecord_get_envelope_penetration_score(self)
853 
854  def set_envelope_penetration_score(self, s):
855  r"""set_envelope_penetration_score(FittingSolutionRecord self, IMP::Float s)"""
856  return _IMP_multifit.FittingSolutionRecord_set_envelope_penetration_score(self, s)
857 
858  def show(self, *args):
859  r"""show(FittingSolutionRecord self, _ostream out=std::cout)"""
860  return _IMP_multifit.FittingSolutionRecord_show(self, *args)
861 
862  @staticmethod
863  def get_record_header():
864  r"""get_record_header() -> std::string"""
865  return _IMP_multifit.FittingSolutionRecord_get_record_header()
866 
867  def __str__(self):
868  r"""__str__(FittingSolutionRecord self) -> std::string"""
869  return _IMP_multifit.FittingSolutionRecord___str__(self)
870 
871  def __repr__(self):
872  r"""__repr__(FittingSolutionRecord self) -> std::string"""
873  return _IMP_multifit.FittingSolutionRecord___repr__(self)
874 
875  def _get_as_binary(self):
876  r"""_get_as_binary(FittingSolutionRecord self) -> PyObject *"""
877  return _IMP_multifit.FittingSolutionRecord__get_as_binary(self)
878 
879  def _set_from_binary(self, p):
880  r"""_set_from_binary(FittingSolutionRecord self, PyObject * p)"""
881  return _IMP_multifit.FittingSolutionRecord__set_from_binary(self, p)
882 
883  def __getstate__(self):
884  p = self._get_as_binary()
885  if len(self.__dict__) > 1:
886  d = self.__dict__.copy()
887  del d['this']
888  p = (d, p)
889  return p
890 
891  def __setstate__(self, p):
892  if not hasattr(self, 'this'):
893  self.__init__()
894  if isinstance(p, tuple):
895  d, p = p
896  self.__dict__.update(d)
897  return self._set_from_binary(p)
898 
899  __swig_destroy__ = _IMP_multifit.delete_FittingSolutionRecord
900 
901 # Register FittingSolutionRecord in _IMP_multifit:
902 _IMP_multifit.FittingSolutionRecord_swigregister(FittingSolutionRecord)
903 
904 def pca_based_rigid_fitting(*args):
905  r"""
906  pca_based_rigid_fitting(RigidBody rb, Refiner rb_refiner, DensityMap em_map, IMP::Float threshold, FloatKey wei_key=IMP::atom::Mass::get_mass_key(), PrincipalComponentAnalysis3D dens_pca_input=IMP::algebra::PrincipalComponentAnalysis()) -> FittingSolutions
907  pca_based_rigid_fitting(IMP::ParticlesTemp ps, DensityMap em_map, IMP::Float threshold, FloatKey wei_key=IMP::atom::Mass::get_mass_key(), PrincipalComponentAnalysis3D dens_pca_input=IMP::algebra::PrincipalComponentAnalysis()) -> FittingSolutions
908  """
909  return _IMP_multifit.pca_based_rigid_fitting(*args)
910 
911 def write_markers(pca, out):
912  r"""write_markers(PrincipalComponentAnalysis3D pca, _ostream out)"""
913  return _IMP_multifit.write_markers(pca, out)
914 class ComponentHeader(IMP.Object):
915  r"""Proxy of C++ IMP::multifit::ComponentHeader class."""
916 
917  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
918 
919  def __init__(self):
920  r"""__init__(ComponentHeader self) -> ComponentHeader"""
921  _IMP_multifit.ComponentHeader_swiginit(self, _IMP_multifit.new_ComponentHeader())
922 
923  def set_name(self, name):
924  r"""set_name(ComponentHeader self, std::string const & name)"""
925  return _IMP_multifit.ComponentHeader_set_name(self, name)
926 
927  def get_name(self):
928  r"""get_name(ComponentHeader self) -> std::string"""
929  return _IMP_multifit.ComponentHeader_get_name(self)
930 
931  def get_filename(self):
932  r"""get_filename(ComponentHeader self) -> std::string"""
933  return _IMP_multifit.ComponentHeader_get_filename(self)
934 
935  def set_filename(self, filename):
936  r"""set_filename(ComponentHeader self, std::string const & filename)"""
937  return _IMP_multifit.ComponentHeader_set_filename(self, filename)
938 
939  def get_surface_fn(self):
940  r"""get_surface_fn(ComponentHeader self) -> std::string"""
941  return _IMP_multifit.ComponentHeader_get_surface_fn(self)
942 
943  def set_surface_fn(self, fn):
944  r"""set_surface_fn(ComponentHeader self, std::string const & fn)"""
945  return _IMP_multifit.ComponentHeader_set_surface_fn(self, fn)
946 
947  def set_txt_ap_fn(self, pdb_ap_fn):
948  r"""set_txt_ap_fn(ComponentHeader self, std::string const & pdb_ap_fn)"""
949  return _IMP_multifit.ComponentHeader_set_txt_ap_fn(self, pdb_ap_fn)
950 
951  def get_txt_ap_fn(self):
952  r"""get_txt_ap_fn(ComponentHeader self) -> std::string"""
953  return _IMP_multifit.ComponentHeader_get_txt_ap_fn(self)
954 
955  def set_txt_fine_ap_fn(self, pdb_ap_fn):
956  r"""set_txt_fine_ap_fn(ComponentHeader self, std::string const & pdb_ap_fn)"""
957  return _IMP_multifit.ComponentHeader_set_txt_fine_ap_fn(self, pdb_ap_fn)
958 
959  def get_txt_fine_ap_fn(self):
960  r"""get_txt_fine_ap_fn(ComponentHeader self) -> std::string"""
961  return _IMP_multifit.ComponentHeader_get_txt_fine_ap_fn(self)
962 
963  def set_num_ap(self, num_ap):
964  r"""set_num_ap(ComponentHeader self, int num_ap)"""
965  return _IMP_multifit.ComponentHeader_set_num_ap(self, num_ap)
966 
967  def get_num_ap(self):
968  r"""get_num_ap(ComponentHeader self) -> int"""
969  return _IMP_multifit.ComponentHeader_get_num_ap(self)
970 
971  def set_num_fine_ap(self, num_ap):
972  r"""set_num_fine_ap(ComponentHeader self, int num_ap)"""
973  return _IMP_multifit.ComponentHeader_set_num_fine_ap(self, num_ap)
974 
975  def get_num_fine_ap(self):
976  r"""get_num_fine_ap(ComponentHeader self) -> int"""
977  return _IMP_multifit.ComponentHeader_get_num_fine_ap(self)
978 
979  def set_transformations_fn(self, transformations_fn):
980  r"""set_transformations_fn(ComponentHeader self, std::string transformations_fn)"""
981  return _IMP_multifit.ComponentHeader_set_transformations_fn(self, transformations_fn)
982 
983  def get_transformations_fn(self):
984  r"""get_transformations_fn(ComponentHeader self) -> std::string"""
985  return _IMP_multifit.ComponentHeader_get_transformations_fn(self)
986 
987  def set_reference_fn(self, ref_fn):
988  r"""set_reference_fn(ComponentHeader self, std::string const & ref_fn)"""
989  return _IMP_multifit.ComponentHeader_set_reference_fn(self, ref_fn)
990 
991  def get_reference_fn(self):
992  r"""get_reference_fn(ComponentHeader self) -> std::string"""
993  return _IMP_multifit.ComponentHeader_get_reference_fn(self)
994 
995  def get_version_info(self):
996  r"""get_version_info(ComponentHeader self) -> VersionInfo"""
997  return _IMP_multifit.ComponentHeader_get_version_info(self)
998  __swig_destroy__ = _IMP_multifit.delete_ComponentHeader
999 
1000  def __str__(self):
1001  r"""__str__(ComponentHeader self) -> std::string"""
1002  return _IMP_multifit.ComponentHeader___str__(self)
1003 
1004  def __repr__(self):
1005  r"""__repr__(ComponentHeader self) -> std::string"""
1006  return _IMP_multifit.ComponentHeader___repr__(self)
1007 
1008  @staticmethod
1009  def get_from(o):
1010  return _object_cast_to_ComponentHeader(o)
1011 
1012 
1013 # Register ComponentHeader in _IMP_multifit:
1014 _IMP_multifit.ComponentHeader_swigregister(ComponentHeader)
1015 class AssemblyHeader(IMP.Object):
1016  r"""Proxy of C++ IMP::multifit::AssemblyHeader class."""
1017 
1018  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1019 
1020  def __init__(self):
1021  r"""__init__(AssemblyHeader self) -> AssemblyHeader"""
1022  _IMP_multifit.AssemblyHeader_swiginit(self, _IMP_multifit.new_AssemblyHeader())
1023 
1024  def set_dens_fn(self, dens_fn):
1025  r"""set_dens_fn(AssemblyHeader self, std::string const & dens_fn)"""
1026  return _IMP_multifit.AssemblyHeader_set_dens_fn(self, dens_fn)
1027 
1028  def get_dens_fn(self):
1029  r"""get_dens_fn(AssemblyHeader self) -> std::string"""
1030  return _IMP_multifit.AssemblyHeader_get_dens_fn(self)
1031 
1032  def set_resolution(self, res):
1033  r"""set_resolution(AssemblyHeader self, float res)"""
1034  return _IMP_multifit.AssemblyHeader_set_resolution(self, res)
1035 
1036  def get_resolution(self):
1037  r"""get_resolution(AssemblyHeader self) -> float"""
1038  return _IMP_multifit.AssemblyHeader_get_resolution(self)
1039 
1040  def get_spacing(self):
1041  r"""get_spacing(AssemblyHeader self) -> float"""
1042  return _IMP_multifit.AssemblyHeader_get_spacing(self)
1043 
1044  def set_spacing(self, spacing):
1045  r"""set_spacing(AssemblyHeader self, float spacing)"""
1046  return _IMP_multifit.AssemblyHeader_set_spacing(self, spacing)
1047 
1048  def set_threshold(self, t):
1049  r"""set_threshold(AssemblyHeader self, float t)"""
1050  return _IMP_multifit.AssemblyHeader_set_threshold(self, t)
1051 
1052  def get_threshold(self):
1053  r"""get_threshold(AssemblyHeader self) -> float"""
1054  return _IMP_multifit.AssemblyHeader_get_threshold(self)
1055 
1056  def get_origin(self):
1057  r"""get_origin(AssemblyHeader self) -> Vector3D"""
1058  return _IMP_multifit.AssemblyHeader_get_origin(self)
1059 
1060  def set_origin(self, origin):
1061  r"""set_origin(AssemblyHeader self, Vector3D origin)"""
1062  return _IMP_multifit.AssemblyHeader_set_origin(self, origin)
1063 
1064  def get_coarse_ap_fn(self):
1065  r"""get_coarse_ap_fn(AssemblyHeader self) -> std::string"""
1066  return _IMP_multifit.AssemblyHeader_get_coarse_ap_fn(self)
1067 
1068  def set_coarse_ap_fn(self, new_fn):
1069  r"""set_coarse_ap_fn(AssemblyHeader self, std::string const & new_fn)"""
1070  return _IMP_multifit.AssemblyHeader_set_coarse_ap_fn(self, new_fn)
1071 
1072  def get_coarse_over_sampled_ap_fn(self):
1073  r"""get_coarse_over_sampled_ap_fn(AssemblyHeader self) -> std::string"""
1074  return _IMP_multifit.AssemblyHeader_get_coarse_over_sampled_ap_fn(self)
1075 
1076  def set_coarse_over_sampled_ap_fn(self, new_fn):
1077  r"""set_coarse_over_sampled_ap_fn(AssemblyHeader self, std::string const & new_fn)"""
1078  return _IMP_multifit.AssemblyHeader_set_coarse_over_sampled_ap_fn(self, new_fn)
1079 
1080  def get_fine_ap_fn(self):
1081  r"""get_fine_ap_fn(AssemblyHeader self) -> std::string"""
1082  return _IMP_multifit.AssemblyHeader_get_fine_ap_fn(self)
1083 
1084  def set_fine_ap_fn(self, new_fn):
1085  r"""set_fine_ap_fn(AssemblyHeader self, std::string const & new_fn)"""
1086  return _IMP_multifit.AssemblyHeader_set_fine_ap_fn(self, new_fn)
1087 
1088  def get_fine_over_sampled_ap_fn(self):
1089  r"""get_fine_over_sampled_ap_fn(AssemblyHeader self) -> std::string"""
1090  return _IMP_multifit.AssemblyHeader_get_fine_over_sampled_ap_fn(self)
1091 
1092  def set_fine_over_sampled_ap_fn(self, new_fn):
1093  r"""set_fine_over_sampled_ap_fn(AssemblyHeader self, std::string const & new_fn)"""
1094  return _IMP_multifit.AssemblyHeader_set_fine_over_sampled_ap_fn(self, new_fn)
1095 
1096  def get_version_info(self):
1097  r"""get_version_info(AssemblyHeader self) -> VersionInfo"""
1098  return _IMP_multifit.AssemblyHeader_get_version_info(self)
1099  __swig_destroy__ = _IMP_multifit.delete_AssemblyHeader
1100 
1101  def __str__(self):
1102  r"""__str__(AssemblyHeader self) -> std::string"""
1103  return _IMP_multifit.AssemblyHeader___str__(self)
1104 
1105  def __repr__(self):
1106  r"""__repr__(AssemblyHeader self) -> std::string"""
1107  return _IMP_multifit.AssemblyHeader___repr__(self)
1108 
1109  @staticmethod
1110  def get_from(o):
1111  return _object_cast_to_AssemblyHeader(o)
1112 
1113 
1114 # Register AssemblyHeader in _IMP_multifit:
1115 _IMP_multifit.AssemblyHeader_swigregister(AssemblyHeader)
1116 class SettingsData(IMP.Object):
1117  r"""Proxy of C++ IMP::multifit::SettingsData class."""
1118 
1119  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1120 
1121  def __init__(self):
1122  r"""__init__(SettingsData self) -> SettingsData"""
1123  _IMP_multifit.SettingsData_swiginit(self, _IMP_multifit.new_SettingsData())
1124 
1125  @staticmethod
1126  def show_component_header_line(*args):
1127  r"""show_component_header_line(_ostream out=std::cout)"""
1128  return _IMP_multifit.SettingsData_show_component_header_line(*args)
1129 
1130  @staticmethod
1131  def get_component_header_line():
1132  r"""get_component_header_line() -> std::string"""
1133  return _IMP_multifit.SettingsData_get_component_header_line()
1134 
1135  @staticmethod
1136  def show_density_header_line(*args):
1137  r"""show_density_header_line(_ostream out=std::cout)"""
1138  return _IMP_multifit.SettingsData_show_density_header_line(*args)
1139 
1140  @staticmethod
1141  def get_density_header_line():
1142  r"""get_density_header_line() -> std::string"""
1143  return _IMP_multifit.SettingsData_get_density_header_line()
1144 
1145  def set_assembly_filename(self, fn):
1146  r"""set_assembly_filename(SettingsData self, std::string const & fn)"""
1147  return _IMP_multifit.SettingsData_set_assembly_filename(self, fn)
1148 
1149  def get_assembly_filename(self):
1150  r"""get_assembly_filename(SettingsData self) -> char const *"""
1151  return _IMP_multifit.SettingsData_get_assembly_filename(self)
1152 
1153  def set_assembly_header(self, h):
1154  r"""set_assembly_header(SettingsData self, AssemblyHeader h)"""
1155  return _IMP_multifit.SettingsData_set_assembly_header(self, h)
1156 
1157  def get_assembly_header(self):
1158  r"""get_assembly_header(SettingsData self) -> AssemblyHeader"""
1159  return _IMP_multifit.SettingsData_get_assembly_header(self)
1160 
1161  def set_data_path(self, fn):
1162  r"""set_data_path(SettingsData self, std::string const & fn)"""
1163  return _IMP_multifit.SettingsData_set_data_path(self, fn)
1164 
1165  def get_data_path(self):
1166  r"""get_data_path(SettingsData self) -> std::string"""
1167  return _IMP_multifit.SettingsData_get_data_path(self)
1168 
1169  def get_version_info(self):
1170  r"""get_version_info(SettingsData self) -> VersionInfo"""
1171  return _IMP_multifit.SettingsData_get_version_info(self)
1172  __swig_destroy__ = _IMP_multifit.delete_SettingsData
1173  def __get_component_headers(self): return IMP._list_util.VarList(getdimfunc=self.get_number_of_component_headers, getfunc=self.get_component_header, erasefunc=self.erase_component_header, appendfunc=self.add_component_header, extendfunc=self.add_component_headers, clearfunc=self.clear_component_headers, indexfunc=self._python_index_component_header)
1174  def __set_component_headers(self, obj): IMP._list_util.set_varlist(self.component_headers, obj)
1175  def __del_component_headers(self): IMP._list_util.del_varlist(self.component_headers)
1176  component_headers = property(__get_component_headers, __set_component_headers, __del_component_headers, doc="List of ##ucnames")
1177 
1178  def remove_component_header(self, d):
1179  r"""remove_component_header(SettingsData self, ComponentHeader d)"""
1180  return _IMP_multifit.SettingsData_remove_component_header(self, d)
1181 
1182  def _python_index_component_header(self, d, start, stop):
1183  r"""_python_index_component_header(SettingsData self, ComponentHeader d, unsigned int start, unsigned int stop) -> unsigned int"""
1184  return _IMP_multifit.SettingsData__python_index_component_header(self, d, start, stop)
1185 
1186  def remove_component_headers(self, d):
1187  r"""remove_component_headers(SettingsData self, IMP::multifit::ComponentHeaders const & d)"""
1188  return _IMP_multifit.SettingsData_remove_component_headers(self, d)
1189 
1190  def set_component_headers(self, ps):
1191  r"""set_component_headers(SettingsData self, IMP::multifit::ComponentHeaders const & ps)"""
1192  return _IMP_multifit.SettingsData_set_component_headers(self, ps)
1193 
1194  def set_component_headers_order(self, objs):
1195  r"""set_component_headers_order(SettingsData self, IMP::multifit::ComponentHeaders const & objs)"""
1196  return _IMP_multifit.SettingsData_set_component_headers_order(self, objs)
1197 
1198  def add_component_header(self, obj):
1199  r"""add_component_header(SettingsData self, ComponentHeader obj) -> unsigned int"""
1200  return _IMP_multifit.SettingsData_add_component_header(self, obj)
1201 
1202  def add_component_headers(self, objs):
1203  r"""add_component_headers(SettingsData self, IMP::multifit::ComponentHeaders const & objs)"""
1204  return _IMP_multifit.SettingsData_add_component_headers(self, objs)
1205 
1206  def clear_component_headers(self):
1207  r"""clear_component_headers(SettingsData self)"""
1208  return _IMP_multifit.SettingsData_clear_component_headers(self)
1209 
1210  def get_number_of_component_headers(self):
1211  r"""get_number_of_component_headers(SettingsData self) -> unsigned int"""
1212  return _IMP_multifit.SettingsData_get_number_of_component_headers(self)
1213 
1214  def get_has_component_headers(self):
1215  r"""get_has_component_headers(SettingsData self) -> bool"""
1216  return _IMP_multifit.SettingsData_get_has_component_headers(self)
1217 
1218  def get_component_header(self, i):
1219  r"""get_component_header(SettingsData self, unsigned int i) -> ComponentHeader"""
1220  return _IMP_multifit.SettingsData_get_component_header(self, i)
1221 
1222  def get_component_headers(self):
1223  r"""get_component_headers(SettingsData self) -> IMP::multifit::ComponentHeaders"""
1224  return _IMP_multifit.SettingsData_get_component_headers(self)
1225 
1226  def erase_component_header(self, i):
1227  r"""erase_component_header(SettingsData self, unsigned int i)"""
1228  return _IMP_multifit.SettingsData_erase_component_header(self, i)
1229 
1230  def reserve_component_headers(self, sz):
1231  r"""reserve_component_headers(SettingsData self, unsigned int sz)"""
1232  return _IMP_multifit.SettingsData_reserve_component_headers(self, sz)
1233 
1234  def __str__(self):
1235  r"""__str__(SettingsData self) -> std::string"""
1236  return _IMP_multifit.SettingsData___str__(self)
1237 
1238  def __repr__(self):
1239  r"""__repr__(SettingsData self) -> std::string"""
1240  return _IMP_multifit.SettingsData___repr__(self)
1241 
1242  @staticmethod
1243  def get_from(o):
1244  return _object_cast_to_SettingsData(o)
1245 
1246 
1247 # Register SettingsData in _IMP_multifit:
1248 _IMP_multifit.SettingsData_swigregister(SettingsData)
1249 
1250 def read_settings(filename):
1251  r"""read_settings(char const * filename) -> SettingsData"""
1252  return _IMP_multifit.read_settings(filename)
1253 
1254 def write_settings(filename, sd):
1255  r"""write_settings(char const * filename, SettingsData sd)"""
1256  return _IMP_multifit.write_settings(filename, sd)
1257 class WeightedExcludedVolumeRestraint(IMP.Restraint):
1258  r"""Proxy of C++ IMP::multifit::WeightedExcludedVolumeRestraint class."""
1259 
1260  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1261 
1262  def __init__(self, *args):
1263  r"""__init__(WeightedExcludedVolumeRestraint self, IMP::core::RigidBodies rbs, Refiner refiner, FloatKey weight_key=IMP::atom::Mass::get_mass_key()) -> WeightedExcludedVolumeRestraint"""
1264  _IMP_multifit.WeightedExcludedVolumeRestraint_swiginit(self, _IMP_multifit.new_WeightedExcludedVolumeRestraint(*args))
1265 
1266  def do_get_inputs(self):
1267  r"""do_get_inputs(WeightedExcludedVolumeRestraint self) -> IMP::ModelObjectsTemp"""
1268  return _IMP_multifit.WeightedExcludedVolumeRestraint_do_get_inputs(self)
1269 
1270  def get_version_info(self):
1271  r"""get_version_info(WeightedExcludedVolumeRestraint self) -> VersionInfo"""
1272  return _IMP_multifit.WeightedExcludedVolumeRestraint_get_version_info(self)
1273  __swig_destroy__ = _IMP_multifit.delete_WeightedExcludedVolumeRestraint
1274 
1275  def __str__(self):
1276  r"""__str__(WeightedExcludedVolumeRestraint self) -> std::string"""
1277  return _IMP_multifit.WeightedExcludedVolumeRestraint___str__(self)
1278 
1279  def __repr__(self):
1280  r"""__repr__(WeightedExcludedVolumeRestraint self) -> std::string"""
1281  return _IMP_multifit.WeightedExcludedVolumeRestraint___repr__(self)
1282 
1283  @staticmethod
1284  def get_from(o):
1285  return _object_cast_to_WeightedExcludedVolumeRestraint(o)
1286 
1287 
1288 # Register WeightedExcludedVolumeRestraint in _IMP_multifit:
1289 _IMP_multifit.WeightedExcludedVolumeRestraint_swigregister(WeightedExcludedVolumeRestraint)
1290 class FFTFittingOutput(IMP.Object):
1291  r"""Proxy of C++ IMP::multifit::FFTFittingOutput class."""
1292 
1293  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1294 
1295  def __init__(self):
1296  r"""__init__(FFTFittingOutput self) -> FFTFittingOutput"""
1297  _IMP_multifit.FFTFittingOutput_swiginit(self, _IMP_multifit.new_FFTFittingOutput())
1298 
1299  def get_version_info(self):
1300  r"""get_version_info(FFTFittingOutput self) -> VersionInfo"""
1301  return _IMP_multifit.FFTFittingOutput_get_version_info(self)
1302  __swig_destroy__ = _IMP_multifit.delete_FFTFittingOutput
1303  best_fits_ = property(_IMP_multifit.FFTFittingOutput_best_fits__get, _IMP_multifit.FFTFittingOutput_best_fits__set, doc=r"""best_fits_ : IMP::multifit::FittingSolutionRecords""")
1304  best_trans_per_rot_ = property(_IMP_multifit.FFTFittingOutput_best_trans_per_rot__get, _IMP_multifit.FFTFittingOutput_best_trans_per_rot__set, doc=r"""best_trans_per_rot_ : IMP::multifit::FittingSolutionRecords""")
1305 
1306  def __str__(self):
1307  r"""__str__(FFTFittingOutput self) -> std::string"""
1308  return _IMP_multifit.FFTFittingOutput___str__(self)
1309 
1310  def __repr__(self):
1311  r"""__repr__(FFTFittingOutput self) -> std::string"""
1312  return _IMP_multifit.FFTFittingOutput___repr__(self)
1313 
1314  @staticmethod
1315  def get_from(o):
1316  return _object_cast_to_FFTFittingOutput(o)
1317 
1318 
1319 # Register FFTFittingOutput in _IMP_multifit:
1320 _IMP_multifit.FFTFittingOutput_swigregister(FFTFittingOutput)
1321 class FFTFitting(IMP.Object):
1322  r"""Proxy of C++ IMP::multifit::FFTFitting class."""
1323 
1324  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1325 
1326  def get_version_info(self):
1327  r"""get_version_info(FFTFitting self) -> VersionInfo"""
1328  return _IMP_multifit.FFTFitting_get_version_info(self)
1329  __swig_destroy__ = _IMP_multifit.delete_FFTFitting
1330 
1331  def __init__(self):
1332  r"""__init__(FFTFitting self) -> FFTFitting"""
1333  _IMP_multifit.FFTFitting_swiginit(self, _IMP_multifit.new_FFTFitting())
1334 
1335  def do_global_fitting(self, *args):
1336  r"""do_global_fitting(FFTFitting self, DensityMap dmap, double density_threshold, Hierarchy mol2fit, double angle_sampling_interval_rad, int num_fits_to_report, double max_clustering_translation, double max_clustering_angle, bool cluster_fits=True, int num_angle_per_voxel=1, std::string const & angles_filename="") -> FFTFittingOutput"""
1337  return _IMP_multifit.FFTFitting_do_global_fitting(self, *args)
1338 
1339  def do_local_fitting(self, *args):
1340  r"""do_local_fitting(FFTFitting self, DensityMap dmap, double density_threshold, Hierarchy mol2fit, double angle_sampling_interval_rad, double max_angle_sampling_rad, double max_translation, int num_fits_to_report, bool cluster_fits, int num_angle_per_voxel, double max_clustering_translation, double max_clustering_rotation, std::string const & angles_filename="") -> FFTFittingOutput"""
1341  return _IMP_multifit.FFTFitting_do_local_fitting(self, *args)
1342 
1343  def __str__(self):
1344  r"""__str__(FFTFitting self) -> std::string"""
1345  return _IMP_multifit.FFTFitting___str__(self)
1346 
1347  def __repr__(self):
1348  r"""__repr__(FFTFitting self) -> std::string"""
1349  return _IMP_multifit.FFTFitting___repr__(self)
1350 
1351  @staticmethod
1352  def get_from(o):
1353  return _object_cast_to_FFTFitting(o)
1354 
1355 
1356 # Register FFTFitting in _IMP_multifit:
1357 _IMP_multifit.FFTFitting_swigregister(FFTFitting)
1358 
1359 def fft_based_rigid_fitting(mol2fit, dmap, density_threshold, angle_sampling_interval_rad):
1360  r"""fft_based_rigid_fitting(Hierarchy mol2fit, DensityMap dmap, double density_threshold, double angle_sampling_interval_rad) -> IMP::multifit::FittingSolutionRecords"""
1361  return _IMP_multifit.fft_based_rigid_fitting(mol2fit, dmap, density_threshold, angle_sampling_interval_rad)
1362 
1363 def remove_background(dmap, threshold, edge_threshold):
1364  r"""remove_background(DensityMap dmap, float threshold, float edge_threshold) -> DensityMap"""
1365  return _IMP_multifit.remove_background(dmap, threshold, edge_threshold)
1366 
1367 def get_connected_components(dmap, threshold, edge_threshold):
1368  r"""get_connected_components(DensityMap dmap, float threshold, float edge_threshold) -> IMP::IntsList"""
1369  return _IMP_multifit.get_connected_components(dmap, threshold, edge_threshold)
1370 
1371 def get_segmentation(dmap, apix, density_threshold, num_means, pdb_filename, cmm_filename, seg_filename, txt_filename):
1372  r"""get_segmentation(DensityMap dmap, double apix, double density_threshold, int num_means, std::string const pdb_filename, std::string const cmm_filename, std::string const seg_filename, std::string const txt_filename)"""
1373  return _IMP_multifit.get_segmentation(dmap, apix, density_threshold, num_means, pdb_filename, cmm_filename, seg_filename, txt_filename)
1374 class ComplementarityRestraint(IMP.Restraint):
1375  r"""Proxy of C++ IMP::multifit::ComplementarityRestraint class."""
1376 
1377  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1378 
1379  def __init__(self, *args):
1380  r"""__init__(ComplementarityRestraint self, IMP::ParticlesTemp const & a, IMP::ParticlesTemp const & b, std::string name="ComplementarityRestraint %1%") -> ComplementarityRestraint"""
1381  _IMP_multifit.ComplementarityRestraint_swiginit(self, _IMP_multifit.new_ComplementarityRestraint(*args))
1382 
1383  def set_maximum_penetration_score(self, s):
1384  r"""set_maximum_penetration_score(ComplementarityRestraint self, double s)"""
1385  return _IMP_multifit.ComplementarityRestraint_set_maximum_penetration_score(self, s)
1386 
1387  def set_maximum_penetration(self, d):
1388  r"""set_maximum_penetration(ComplementarityRestraint self, double d)"""
1389  return _IMP_multifit.ComplementarityRestraint_set_maximum_penetration(self, d)
1390 
1391  def set_maximum_separation(self, s):
1392  r"""set_maximum_separation(ComplementarityRestraint self, double s)"""
1393  return _IMP_multifit.ComplementarityRestraint_set_maximum_separation(self, s)
1394 
1395  def set_complementarity_thickness(self, th):
1396  r"""set_complementarity_thickness(ComplementarityRestraint self, double th)"""
1397  return _IMP_multifit.ComplementarityRestraint_set_complementarity_thickness(self, th)
1398 
1399  def set_complementarity_value(self, th):
1400  r"""set_complementarity_value(ComplementarityRestraint self, double th)"""
1401  return _IMP_multifit.ComplementarityRestraint_set_complementarity_value(self, th)
1402 
1403  def set_interior_layer_thickness(self, th):
1404  r"""set_interior_layer_thickness(ComplementarityRestraint self, double th)"""
1405  return _IMP_multifit.ComplementarityRestraint_set_interior_layer_thickness(self, th)
1406 
1407  def set_penetration_coefficient(self, pc):
1408  r"""set_penetration_coefficient(ComplementarityRestraint self, double pc)"""
1409  return _IMP_multifit.ComplementarityRestraint_set_penetration_coefficient(self, pc)
1410 
1411  def set_complementarity_coefficient(self, cc):
1412  r"""set_complementarity_coefficient(ComplementarityRestraint self, double cc)"""
1413  return _IMP_multifit.ComplementarityRestraint_set_complementarity_coefficient(self, cc)
1414 
1415  def set_boundary_coefficient(self, bc):
1416  r"""set_boundary_coefficient(ComplementarityRestraint self, double bc)"""
1417  return _IMP_multifit.ComplementarityRestraint_set_boundary_coefficient(self, bc)
1418 
1419  def get_voxel_size(self):
1420  r"""get_voxel_size(ComplementarityRestraint self) -> float"""
1421  return _IMP_multifit.ComplementarityRestraint_get_voxel_size(self)
1422 
1423  def do_get_inputs(self):
1424  r"""do_get_inputs(ComplementarityRestraint self) -> IMP::ModelObjectsTemp"""
1425  return _IMP_multifit.ComplementarityRestraint_do_get_inputs(self)
1426 
1427  def get_version_info(self):
1428  r"""get_version_info(ComplementarityRestraint self) -> VersionInfo"""
1429  return _IMP_multifit.ComplementarityRestraint_get_version_info(self)
1430  __swig_destroy__ = _IMP_multifit.delete_ComplementarityRestraint
1431 
1432  def __str__(self):
1433  r"""__str__(ComplementarityRestraint self) -> std::string"""
1434  return _IMP_multifit.ComplementarityRestraint___str__(self)
1435 
1436  def __repr__(self):
1437  r"""__repr__(ComplementarityRestraint self) -> std::string"""
1438  return _IMP_multifit.ComplementarityRestraint___repr__(self)
1439 
1440  @staticmethod
1441  def get_from(o):
1442  return _object_cast_to_ComplementarityRestraint(o)
1443 
1444 
1445 # Register ComplementarityRestraint in _IMP_multifit:
1446 _IMP_multifit.ComplementarityRestraint_swigregister(ComplementarityRestraint)
1447 
1448 def read_fitting_solutions(fitting_fn):
1449  r"""read_fitting_solutions(char const * fitting_fn) -> IMP::multifit::FittingSolutionRecords"""
1450  return _IMP_multifit.read_fitting_solutions(fitting_fn)
1451 
1452 def write_fitting_solutions(fitting_fn, fit_sols, num_sols=-1):
1453  r"""write_fitting_solutions(char const * fitting_fn, IMP::multifit::FittingSolutionRecords const & fit_sols, int num_sols=-1)"""
1454  return _IMP_multifit.write_fitting_solutions(fitting_fn, fit_sols, num_sols)
1455 
1456 def convert_em_to_multifit_format(em_fits):
1457  r"""convert_em_to_multifit_format(FittingSolutions em_fits) -> IMP::multifit::FittingSolutionRecords"""
1458  return _IMP_multifit.convert_em_to_multifit_format(em_fits)
1459 
1460 def convert_multifit_to_em_format(multifit_fits):
1461  r"""convert_multifit_to_em_format(IMP::multifit::FittingSolutionRecords const & multifit_fits) -> FittingSolutions"""
1462  return _IMP_multifit.convert_multifit_to_em_format(multifit_fits)
1463 
1464 def convert_transformations_to_multifit_format(trans):
1465  r"""convert_transformations_to_multifit_format(IMP::algebra::Transformation3Ds const & trans) -> IMP::multifit::FittingSolutionRecords"""
1466  return _IMP_multifit.convert_transformations_to_multifit_format(trans)
1467 
1468 def convert_multifit_format_to_transformations(recs):
1469  r"""convert_multifit_format_to_transformations(IMP::multifit::FittingSolutionRecords const & recs) -> IMP::algebra::Transformation3Ds"""
1470  return _IMP_multifit.convert_multifit_format_to_transformations(recs)
1471 
1472 def get_close_to_point(fit_sols, mh, ap, dist):
1473  r"""get_close_to_point(IMP::multifit::FittingSolutionRecords const & fit_sols, Hierarchy mh, Particle ap, IMP::Float dist) -> IMP::multifit::FittingSolutionRecords"""
1474  return _IMP_multifit.get_close_to_point(fit_sols, mh, ap, dist)
1475 class ProbabilisticAnchorGraph(IMP.Object):
1476  r"""Proxy of C++ IMP::multifit::ProbabilisticAnchorGraph class."""
1477 
1478  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1479 
1480  def __init__(self, anchor_positions):
1481  r"""__init__(ProbabilisticAnchorGraph self, IMP::algebra::Vector3Ds anchor_positions) -> ProbabilisticAnchorGraph"""
1482  _IMP_multifit.ProbabilisticAnchorGraph_swiginit(self, _IMP_multifit.new_ProbabilisticAnchorGraph(anchor_positions))
1483 
1484  def add_edge(self, i, j):
1485  r"""add_edge(ProbabilisticAnchorGraph self, int i, int j)"""
1486  return _IMP_multifit.ProbabilisticAnchorGraph_add_edge(self, i, j)
1487 
1488  def set_particle_probabilities_on_anchors(self, p, sols):
1489  r"""set_particle_probabilities_on_anchors(ProbabilisticAnchorGraph self, Particle p, IMP::multifit::FittingSolutionRecords sols)"""
1490  return _IMP_multifit.ProbabilisticAnchorGraph_set_particle_probabilities_on_anchors(self, p, sols)
1491 
1492  def show(self, *args):
1493  r"""show(ProbabilisticAnchorGraph self, _ostream out=std::cout)"""
1494  return _IMP_multifit.ProbabilisticAnchorGraph_show(self, *args)
1495 
1496  def get_number_of_anchors(self):
1497  r"""get_number_of_anchors(ProbabilisticAnchorGraph self) -> unsigned int"""
1498  return _IMP_multifit.ProbabilisticAnchorGraph_get_number_of_anchors(self)
1499 
1500  def get_number_of_edges(self):
1501  r"""get_number_of_edges(ProbabilisticAnchorGraph self) -> unsigned int"""
1502  return _IMP_multifit.ProbabilisticAnchorGraph_get_number_of_edges(self)
1503 
1504  def get_edge_list(self):
1505  r"""get_edge_list(ProbabilisticAnchorGraph self) -> IMP::IntRanges"""
1506  return _IMP_multifit.ProbabilisticAnchorGraph_get_edge_list(self)
1507 
1508  def get_anchors(self):
1509  r"""get_anchors(ProbabilisticAnchorGraph self) -> IMP::algebra::Vector3Ds"""
1510  return _IMP_multifit.ProbabilisticAnchorGraph_get_anchors(self)
1511 
1512  def get_particle_anchors(self, p, min_prob=0):
1513  r"""get_particle_anchors(ProbabilisticAnchorGraph self, Particle p, float min_prob=0) -> IMP::algebra::Vector3Ds"""
1514  return _IMP_multifit.ProbabilisticAnchorGraph_get_particle_anchors(self, p, min_prob)
1515 
1516  def get_are_probabilities_for_particle_set(self, p):
1517  r"""get_are_probabilities_for_particle_set(ProbabilisticAnchorGraph self, Particle p) -> bool"""
1518  return _IMP_multifit.ProbabilisticAnchorGraph_get_are_probabilities_for_particle_set(self, p)
1519 
1520  def get_particle_probabilities(self, p):
1521  r"""get_particle_probabilities(ProbabilisticAnchorGraph self, Particle p) -> IMP::Floats"""
1522  return _IMP_multifit.ProbabilisticAnchorGraph_get_particle_probabilities(self, p)
1523 
1524  def get_version_info(self):
1525  r"""get_version_info(ProbabilisticAnchorGraph self) -> VersionInfo"""
1526  return _IMP_multifit.ProbabilisticAnchorGraph_get_version_info(self)
1527  __swig_destroy__ = _IMP_multifit.delete_ProbabilisticAnchorGraph
1528 
1529  def __str__(self):
1530  r"""__str__(ProbabilisticAnchorGraph self) -> std::string"""
1531  return _IMP_multifit.ProbabilisticAnchorGraph___str__(self)
1532 
1533  def __repr__(self):
1534  r"""__repr__(ProbabilisticAnchorGraph self) -> std::string"""
1535  return _IMP_multifit.ProbabilisticAnchorGraph___repr__(self)
1536 
1537  @staticmethod
1538  def get_from(o):
1539  return _object_cast_to_ProbabilisticAnchorGraph(o)
1540 
1541 
1542 # Register ProbabilisticAnchorGraph in _IMP_multifit:
1543 _IMP_multifit.ProbabilisticAnchorGraph_swigregister(ProbabilisticAnchorGraph)
1544 class ProteinRecordData(object):
1545  r"""Proxy of C++ IMP::multifit::ProteinRecordData class."""
1546 
1547  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1548 
1549  def reset_all(self):
1550  r"""reset_all(ProteinRecordData self)"""
1551  return _IMP_multifit.ProteinRecordData_reset_all(self)
1552 
1553  def __init__(self, *args):
1554  r"""
1555  __init__(ProteinRecordData self) -> ProteinRecordData
1556  __init__(ProteinRecordData self, std::string const & name) -> ProteinRecordData
1557  __init__(ProteinRecordData self, std::string const & name, std::string const fn) -> ProteinRecordData
1558  __init__(ProteinRecordData self, std::string const & name, int start_res, int end_res, std::string const fn) -> ProteinRecordData
1559  __init__(ProteinRecordData self, std::string const & name, int start_res, int end_res, std::string const & fn, std::string const & surface_fn, std::string const & ref_fn) -> ProteinRecordData
1560  """
1561  _IMP_multifit.ProteinRecordData_swiginit(self, _IMP_multifit.new_ProteinRecordData(*args))
1562 
1563  def show(self, *args):
1564  r"""show(ProteinRecordData self, _ostream out=std::cout)"""
1565  return _IMP_multifit.ProteinRecordData_show(self, *args)
1566  name_ = property(_IMP_multifit.ProteinRecordData_name__get, _IMP_multifit.ProteinRecordData_name__set, doc=r"""name_ : std::string""")
1567  start_res_ = property(_IMP_multifit.ProteinRecordData_start_res__get, _IMP_multifit.ProteinRecordData_start_res__set, doc=r"""start_res_ : int""")
1568  end_res_ = property(_IMP_multifit.ProteinRecordData_end_res__get, _IMP_multifit.ProteinRecordData_end_res__set, doc=r"""end_res_ : int""")
1569  filename_ = property(_IMP_multifit.ProteinRecordData_filename__get, _IMP_multifit.ProteinRecordData_filename__set, doc=r"""filename_ : std::string""")
1570  surface_filename_ = property(_IMP_multifit.ProteinRecordData_surface_filename__get, _IMP_multifit.ProteinRecordData_surface_filename__set, doc=r"""surface_filename_ : std::string""")
1571  ref_filename_ = property(_IMP_multifit.ProteinRecordData_ref_filename__get, _IMP_multifit.ProteinRecordData_ref_filename__set, doc=r"""ref_filename_ : std::string""")
1572 
1573  def __str__(self):
1574  r"""__str__(ProteinRecordData self) -> std::string"""
1575  return _IMP_multifit.ProteinRecordData___str__(self)
1576 
1577  def __repr__(self):
1578  r"""__repr__(ProteinRecordData self) -> std::string"""
1579  return _IMP_multifit.ProteinRecordData___repr__(self)
1580 
1581  def _get_as_binary(self):
1582  r"""_get_as_binary(ProteinRecordData self) -> PyObject *"""
1583  return _IMP_multifit.ProteinRecordData__get_as_binary(self)
1584 
1585  def _set_from_binary(self, p):
1586  r"""_set_from_binary(ProteinRecordData self, PyObject * p)"""
1587  return _IMP_multifit.ProteinRecordData__set_from_binary(self, p)
1588 
1589  def __getstate__(self):
1590  p = self._get_as_binary()
1591  if len(self.__dict__) > 1:
1592  d = self.__dict__.copy()
1593  del d['this']
1594  p = (d, p)
1595  return p
1596 
1597  def __setstate__(self, p):
1598  if not hasattr(self, 'this'):
1599  self.__init__()
1600  if isinstance(p, tuple):
1601  d, p = p
1602  self.__dict__.update(d)
1603  return self._set_from_binary(p)
1604 
1605  __swig_destroy__ = _IMP_multifit.delete_ProteinRecordData
1606 
1607 # Register ProteinRecordData in _IMP_multifit:
1608 _IMP_multifit.ProteinRecordData_swigregister(ProteinRecordData)
1609 class ProteomicsData(IMP.Object):
1610  r"""Proxy of C++ IMP::multifit::ProteomicsData class."""
1611 
1612  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1613 
1614  def __init__(self):
1615  r"""__init__(ProteomicsData self) -> ProteomicsData"""
1616  _IMP_multifit.ProteomicsData_swiginit(self, _IMP_multifit.new_ProteomicsData())
1617 
1618  def add_protein(self, *args):
1619  r"""
1620  add_protein(ProteomicsData self, std::string name, int start_res, int end_res, std::string const & mol_fn, std::string const & surface_fn, std::string const & ref_fn) -> int
1621  add_protein(ProteomicsData self, ProteinRecordData rec) -> int
1622  """
1623  return _IMP_multifit.ProteomicsData_add_protein(self, *args)
1624 
1625  def find(self, name):
1626  r"""find(ProteomicsData self, std::string const & name) -> int"""
1627  return _IMP_multifit.ProteomicsData_find(self, name)
1628 
1629  def add_interaction(self, ii, used_for_filter, linker_len):
1630  r"""add_interaction(ProteomicsData self, IMP::Ints const & ii, bool used_for_filter, float linker_len)"""
1631  return _IMP_multifit.ProteomicsData_add_interaction(self, ii, used_for_filter, linker_len)
1632 
1633  def add_cross_link_interaction(self, prot1, res1, prot2, res2, used_in_filter, linker_len):
1634  r"""add_cross_link_interaction(ProteomicsData self, IMP::Int prot1, IMP::Int res1, IMP::Int prot2, IMP::Int res2, bool used_in_filter, IMP::Float linker_len)"""
1635  return _IMP_multifit.ProteomicsData_add_cross_link_interaction(self, prot1, res1, prot2, res2, used_in_filter, linker_len)
1636 
1637  def add_ev_pair(self, prot1, prot2):
1638  r"""add_ev_pair(ProteomicsData self, IMP::Int prot1, IMP::Int prot2)"""
1639  return _IMP_multifit.ProteomicsData_add_ev_pair(self, prot1, prot2)
1640 
1641  def get_number_of_proteins(self):
1642  r"""get_number_of_proteins(ProteomicsData self) -> int"""
1643  return _IMP_multifit.ProteomicsData_get_number_of_proteins(self)
1644 
1645  def get_number_of_interactions(self):
1646  r"""get_number_of_interactions(ProteomicsData self) -> int"""
1647  return _IMP_multifit.ProteomicsData_get_number_of_interactions(self)
1648 
1649  def get_interaction(self, interaction_ind):
1650  r"""get_interaction(ProteomicsData self, int interaction_ind) -> IMP::Ints"""
1651  return _IMP_multifit.ProteomicsData_get_interaction(self, interaction_ind)
1652 
1653  def get_interaction_part_of_filter(self, interaction_ind):
1654  r"""get_interaction_part_of_filter(ProteomicsData self, int interaction_ind) -> bool"""
1655  return _IMP_multifit.ProteomicsData_get_interaction_part_of_filter(self, interaction_ind)
1656 
1657  def get_interaction_linker_length(self, interaction_ind):
1658  r"""get_interaction_linker_length(ProteomicsData self, int interaction_ind) -> int"""
1659  return _IMP_multifit.ProteomicsData_get_interaction_linker_length(self, interaction_ind)
1660 
1661  def get_number_of_cross_links(self):
1662  r"""get_number_of_cross_links(ProteomicsData self) -> int"""
1663  return _IMP_multifit.ProteomicsData_get_number_of_cross_links(self)
1664 
1665  def get_cross_link(self, xlink_ind):
1666  r"""get_cross_link(ProteomicsData self, int xlink_ind) -> std::pair< IMP::IntPair,IMP::IntPair >"""
1667  return _IMP_multifit.ProteomicsData_get_cross_link(self, xlink_ind)
1668 
1669  def get_cross_link_part_of_filter(self, xlink_ind):
1670  r"""get_cross_link_part_of_filter(ProteomicsData self, int xlink_ind) -> bool"""
1671  return _IMP_multifit.ProteomicsData_get_cross_link_part_of_filter(self, xlink_ind)
1672 
1673  def get_cross_link_length(self, xlink_ind):
1674  r"""get_cross_link_length(ProteomicsData self, int xlink_ind) -> float"""
1675  return _IMP_multifit.ProteomicsData_get_cross_link_length(self, xlink_ind)
1676 
1677  def get_number_of_ev_pairs(self):
1678  r"""get_number_of_ev_pairs(ProteomicsData self) -> int"""
1679  return _IMP_multifit.ProteomicsData_get_number_of_ev_pairs(self)
1680 
1681  def get_ev_pair(self, ev_ind):
1682  r"""get_ev_pair(ProteomicsData self, int ev_ind) -> IMP::IntPair"""
1683  return _IMP_multifit.ProteomicsData_get_ev_pair(self, ev_ind)
1684 
1685  def get_protein_name(self, protein_ind):
1686  r"""get_protein_name(ProteomicsData self, int protein_ind) -> std::string"""
1687  return _IMP_multifit.ProteomicsData_get_protein_name(self, protein_ind)
1688 
1689  def get_end_res(self, protein_ind):
1690  r"""get_end_res(ProteomicsData self, int protein_ind) -> int"""
1691  return _IMP_multifit.ProteomicsData_get_end_res(self, protein_ind)
1692 
1693  def get_start_res(self, protein_ind):
1694  r"""get_start_res(ProteomicsData self, int protein_ind) -> int"""
1695  return _IMP_multifit.ProteomicsData_get_start_res(self, protein_ind)
1696 
1697  def get_protein_filename(self, protein_ind):
1698  r"""get_protein_filename(ProteomicsData self, int protein_ind) -> std::string"""
1699  return _IMP_multifit.ProteomicsData_get_protein_filename(self, protein_ind)
1700 
1701  def get_reference_filename(self, protein_ind):
1702  r"""get_reference_filename(ProteomicsData self, int protein_ind) -> std::string"""
1703  return _IMP_multifit.ProteomicsData_get_reference_filename(self, protein_ind)
1704 
1705  def get_surface_filename(self, protein_ind):
1706  r"""get_surface_filename(ProteomicsData self, int protein_ind) -> std::string"""
1707  return _IMP_multifit.ProteomicsData_get_surface_filename(self, protein_ind)
1708 
1709  def get_protein_data(self, protein_ind):
1710  r"""get_protein_data(ProteomicsData self, int protein_ind) -> ProteinRecordData"""
1711  return _IMP_multifit.ProteomicsData_get_protein_data(self, protein_ind)
1712 
1713  def get_version_info(self):
1714  r"""get_version_info(ProteomicsData self) -> VersionInfo"""
1715  return _IMP_multifit.ProteomicsData_get_version_info(self)
1716  __swig_destroy__ = _IMP_multifit.delete_ProteomicsData
1717 
1718  def get_num_allowed_violated_interactions(self):
1719  r"""get_num_allowed_violated_interactions(ProteomicsData self) -> int"""
1720  return _IMP_multifit.ProteomicsData_get_num_allowed_violated_interactions(self)
1721 
1722  def set_num_allowed_violated_interactions(self, n):
1723  r"""set_num_allowed_violated_interactions(ProteomicsData self, int n)"""
1724  return _IMP_multifit.ProteomicsData_set_num_allowed_violated_interactions(self, n)
1725 
1726  def get_num_allowed_violated_cross_links(self):
1727  r"""get_num_allowed_violated_cross_links(ProteomicsData self) -> int"""
1728  return _IMP_multifit.ProteomicsData_get_num_allowed_violated_cross_links(self)
1729 
1730  def set_num_allowed_violated_cross_links(self, n):
1731  r"""set_num_allowed_violated_cross_links(ProteomicsData self, int n)"""
1732  return _IMP_multifit.ProteomicsData_set_num_allowed_violated_cross_links(self, n)
1733 
1734  def get_num_allowed_violated_ev(self):
1735  r"""get_num_allowed_violated_ev(ProteomicsData self) -> int"""
1736  return _IMP_multifit.ProteomicsData_get_num_allowed_violated_ev(self)
1737 
1738  def set_num_allowed_violated_ev(self, n):
1739  r"""set_num_allowed_violated_ev(ProteomicsData self, int n)"""
1740  return _IMP_multifit.ProteomicsData_set_num_allowed_violated_ev(self, n)
1741 
1742  def __str__(self):
1743  r"""__str__(ProteomicsData self) -> std::string"""
1744  return _IMP_multifit.ProteomicsData___str__(self)
1745 
1746  def __repr__(self):
1747  r"""__repr__(ProteomicsData self) -> std::string"""
1748  return _IMP_multifit.ProteomicsData___repr__(self)
1749 
1750  @staticmethod
1751  def get_from(o):
1752  return _object_cast_to_ProteomicsData(o)
1753 
1754 
1755 # Register ProteomicsData in _IMP_multifit:
1756 _IMP_multifit.ProteomicsData_swigregister(ProteomicsData)
1757 
1758 def read_proteomics_data(proteomics_fn):
1759  r"""read_proteomics_data(char const * proteomics_fn) -> ProteomicsData"""
1760  return _IMP_multifit.read_proteomics_data(proteomics_fn)
1761 
1762 def get_partial_proteomics_data(pd, prot_names):
1763  r"""get_partial_proteomics_data(ProteomicsData pd, IMP::Strings const & prot_names) -> ProteomicsData"""
1764  return _IMP_multifit.get_partial_proteomics_data(pd, prot_names)
1765 class AnchorsData(object):
1766  r"""Proxy of C++ IMP::multifit::AnchorsData class."""
1767 
1768  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1769 
1770  def __init__(self, *args):
1771  r"""
1772  __init__(AnchorsData self) -> AnchorsData
1773  __init__(AnchorsData self, IMP::algebra::Vector3Ds points, IMP::IntPairs edges) -> AnchorsData
1774  """
1775  _IMP_multifit.AnchorsData_swiginit(self, _IMP_multifit.new_AnchorsData(*args))
1776 
1777  def remove_edges_for_node(self, node_ind):
1778  r"""remove_edges_for_node(AnchorsData self, int node_ind)"""
1779  return _IMP_multifit.AnchorsData_remove_edges_for_node(self, node_ind)
1780 
1781  def get_number_of_points(self):
1782  r"""get_number_of_points(AnchorsData self) -> int"""
1783  return _IMP_multifit.AnchorsData_get_number_of_points(self)
1784 
1785  def get_number_of_edges(self):
1786  r"""get_number_of_edges(AnchorsData self) -> int"""
1787  return _IMP_multifit.AnchorsData_get_number_of_edges(self)
1788 
1789  def get_is_point_considered(self, node_ind):
1790  r"""get_is_point_considered(AnchorsData self, int node_ind) -> bool"""
1791  return _IMP_multifit.AnchorsData_get_is_point_considered(self, node_ind)
1792 
1793  def show(self, *args):
1794  r"""show(AnchorsData self, _ostream out=std::cout)"""
1795  return _IMP_multifit.AnchorsData_show(self, *args)
1796 
1797  def get_secondary_structure_is_set(self):
1798  r"""get_secondary_structure_is_set(AnchorsData self) -> bool"""
1799  return _IMP_multifit.AnchorsData_get_secondary_structure_is_set(self)
1800 
1801  def setup_secondary_structure(self, mdl):
1802  r"""setup_secondary_structure(AnchorsData self, Model mdl)"""
1803  return _IMP_multifit.AnchorsData_setup_secondary_structure(self, mdl)
1804 
1805  def set_secondary_structure_probabilities(self, *args):
1806  r"""set_secondary_structure_probabilities(AnchorsData self, IMP::Particles const & ssres_ps, IMP::Ints const & indices=IMP::Ints())"""
1807  return _IMP_multifit.AnchorsData_set_secondary_structure_probabilities(self, *args)
1808 
1809  def get_secondary_structure_particles(self):
1810  r"""get_secondary_structure_particles(AnchorsData self) -> IMP::Particles"""
1811  return _IMP_multifit.AnchorsData_get_secondary_structure_particles(self)
1812  points_ = property(_IMP_multifit.AnchorsData_points__get, _IMP_multifit.AnchorsData_points__set, doc=r"""points_ : IMP::algebra::Vector3Ds""")
1813  consider_point_ = property(_IMP_multifit.AnchorsData_consider_point__get, _IMP_multifit.AnchorsData_consider_point__set, doc=r"""consider_point_ : std::vector<(bool,std::allocator<(bool)>)>""")
1814  edges_ = property(_IMP_multifit.AnchorsData_edges__get, _IMP_multifit.AnchorsData_edges__set, doc=r"""edges_ : IMP::IntPairs""")
1815 
1816  def __str__(self):
1817  r"""__str__(AnchorsData self) -> std::string"""
1818  return _IMP_multifit.AnchorsData___str__(self)
1819 
1820  def __repr__(self):
1821  r"""__repr__(AnchorsData self) -> std::string"""
1822  return _IMP_multifit.AnchorsData___repr__(self)
1823  __swig_destroy__ = _IMP_multifit.delete_AnchorsData
1824 
1825 # Register AnchorsData in _IMP_multifit:
1826 _IMP_multifit.AnchorsData_swigregister(AnchorsData)
1827 
1828 def read_anchors_data(txt_filename):
1829  r"""read_anchors_data(char const * txt_filename) -> AnchorsData"""
1830  return _IMP_multifit.read_anchors_data(txt_filename)
1831 
1832 def write_txt(txt_filename, ad):
1833  r"""write_txt(std::string const & txt_filename, AnchorsData ad)"""
1834  return _IMP_multifit.write_txt(txt_filename, ad)
1835 
1836 def write_cmm(cmm_filename, marker_set_name, dpa):
1837  r"""write_cmm(std::string const & cmm_filename, std::string const & marker_set_name, AnchorsData dpa)"""
1838  return _IMP_multifit.write_cmm(cmm_filename, marker_set_name, dpa)
1839 
1840 def create_coarse_molecule_from_density(dmap, dens_threshold, num_beads, mdl, bead_radius):
1841  r"""create_coarse_molecule_from_density(DensityMap dmap, float dens_threshold, int num_beads, Model mdl, float bead_radius) -> Hierarchy"""
1842  return _IMP_multifit.create_coarse_molecule_from_density(dmap, dens_threshold, num_beads, mdl, bead_radius)
1843 
1844 def create_hit_map(rb, rb_ref, sols, damp):
1845  r"""create_hit_map(RigidBody rb, Refiner rb_ref, IMP::multifit::FittingSolutionRecords const & sols, DensityMap damp) -> DensityMap"""
1846  return _IMP_multifit.create_hit_map(rb, rb_ref, sols, damp)
1847 
1848 def get_points_close_to_molecule(mh, points, max_dist):
1849  r"""get_points_close_to_molecule(Hierarchy mh, IMP::algebra::Vector3Ds const points, IMP::Float max_dist) -> IMP::algebra::Vector3Ds"""
1850  return _IMP_multifit.get_points_close_to_molecule(mh, points, max_dist)
1851 
1852 def get_points_far_from_molecule(mh, points, max_dist):
1853  r"""get_points_far_from_molecule(Hierarchy mh, IMP::algebra::Vector3Ds const points, IMP::Float max_dist) -> IMP::algebra::Vector3Ds"""
1854  return _IMP_multifit.get_points_far_from_molecule(mh, points, max_dist)
1855 class RadiusOfGyrationRestraint(IMP.Restraint):
1856  r"""Proxy of C++ IMP::multifit::RadiusOfGyrationRestraint class."""
1857 
1858  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1859 
1860  def __init__(self, ps, num_residues, scale=1.):
1861  r"""__init__(RadiusOfGyrationRestraint self, IMP::Particles ps, int num_residues, IMP::Float scale=1.) -> RadiusOfGyrationRestraint"""
1862  _IMP_multifit.RadiusOfGyrationRestraint_swiginit(self, _IMP_multifit.new_RadiusOfGyrationRestraint(ps, num_residues, scale))
1863 
1864  def do_get_inputs(self):
1865  r"""do_get_inputs(RadiusOfGyrationRestraint self) -> IMP::ModelObjectsTemp"""
1866  return _IMP_multifit.RadiusOfGyrationRestraint_do_get_inputs(self)
1867 
1868  def get_version_info(self):
1869  r"""get_version_info(RadiusOfGyrationRestraint self) -> VersionInfo"""
1870  return _IMP_multifit.RadiusOfGyrationRestraint_get_version_info(self)
1871  __swig_destroy__ = _IMP_multifit.delete_RadiusOfGyrationRestraint
1872 
1873  def set_radius_of_gyration(self, r):
1874  r"""set_radius_of_gyration(RadiusOfGyrationRestraint self, IMP::Float r)"""
1875  return _IMP_multifit.RadiusOfGyrationRestraint_set_radius_of_gyration(self, r)
1876 
1877  def get_radius_of_gyration(self):
1878  r"""get_radius_of_gyration(RadiusOfGyrationRestraint self) -> IMP::Float"""
1879  return _IMP_multifit.RadiusOfGyrationRestraint_get_radius_of_gyration(self)
1880 
1881  def __str__(self):
1882  r"""__str__(RadiusOfGyrationRestraint self) -> std::string"""
1883  return _IMP_multifit.RadiusOfGyrationRestraint___str__(self)
1884 
1885  def __repr__(self):
1886  r"""__repr__(RadiusOfGyrationRestraint self) -> std::string"""
1887  return _IMP_multifit.RadiusOfGyrationRestraint___repr__(self)
1888 
1889  @staticmethod
1890  def get_from(o):
1891  return _object_cast_to_RadiusOfGyrationRestraint(o)
1892 
1893 
1894 # Register RadiusOfGyrationRestraint in _IMP_multifit:
1895 _IMP_multifit.RadiusOfGyrationRestraint_swigregister(RadiusOfGyrationRestraint)
1896 
1897 def get_approximated_radius_of_gyration(len):
1898  r"""get_approximated_radius_of_gyration(int len) -> float"""
1899  return _IMP_multifit.get_approximated_radius_of_gyration(len)
1900 
1901 def get_actual_radius_of_gyration(ps):
1902  r"""get_actual_radius_of_gyration(IMP::ParticlesTemp ps) -> float"""
1903  return _IMP_multifit.get_actual_radius_of_gyration(ps)
1904 
1905 def get_approximated_radius(len):
1906  r"""get_approximated_radius(int len) -> float"""
1907  return _IMP_multifit.get_approximated_radius(len)
1908 class ProteinsAnchorsSamplingSpace(object):
1909  r"""Proxy of C++ IMP::multifit::ProteinsAnchorsSamplingSpace class."""
1910 
1911  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
1912 
1913  def __init__(self, prots=None):
1914  r"""__init__(ProteinsAnchorsSamplingSpace self, ProteomicsData prots=None) -> ProteinsAnchorsSamplingSpace"""
1915  _IMP_multifit.ProteinsAnchorsSamplingSpace_swiginit(self, _IMP_multifit.new_ProteinsAnchorsSamplingSpace(prots))
1916 
1917  def set_anchors(self, data):
1918  r"""set_anchors(ProteinsAnchorsSamplingSpace self, AnchorsData data)"""
1919  return _IMP_multifit.ProteinsAnchorsSamplingSpace_set_anchors(self, data)
1920 
1921  def get_anchors(self):
1922  r"""get_anchors(ProteinsAnchorsSamplingSpace self) -> AnchorsData"""
1923  return _IMP_multifit.ProteinsAnchorsSamplingSpace_get_anchors(self)
1924 
1925  def get_anchors_filename(self):
1926  r"""get_anchors_filename(ProteinsAnchorsSamplingSpace self) -> std::string"""
1927  return _IMP_multifit.ProteinsAnchorsSamplingSpace_get_anchors_filename(self)
1928 
1929  def set_anchors_filename(self, fn):
1930  r"""set_anchors_filename(ProteinsAnchorsSamplingSpace self, std::string const & fn)"""
1931  return _IMP_multifit.ProteinsAnchorsSamplingSpace_set_anchors_filename(self, fn)
1932 
1933  def get_proteomics_data(self):
1934  r"""get_proteomics_data(ProteinsAnchorsSamplingSpace self) -> ProteomicsData"""
1935  return _IMP_multifit.ProteinsAnchorsSamplingSpace_get_proteomics_data(self)
1936 
1937  def add_protein(self, rec):
1938  r"""add_protein(ProteinsAnchorsSamplingSpace self, ProteinRecordData rec)"""
1939  return _IMP_multifit.ProteinsAnchorsSamplingSpace_add_protein(self, rec)
1940 
1941  def get_paths_for_protein(self, prot_name):
1942  r"""get_paths_for_protein(ProteinsAnchorsSamplingSpace self, std::string const & prot_name) -> IMP::IntsList"""
1943  return _IMP_multifit.ProteinsAnchorsSamplingSpace_get_paths_for_protein(self, prot_name)
1944 
1945  def set_paths_filename_for_protein(self, prot_name, paths_filename):
1946  r"""set_paths_filename_for_protein(ProteinsAnchorsSamplingSpace self, std::string const & prot_name, std::string const & paths_filename)"""
1947  return _IMP_multifit.ProteinsAnchorsSamplingSpace_set_paths_filename_for_protein(self, prot_name, paths_filename)
1948 
1949  def get_paths_filename_for_protein(self, prot_name):
1950  r"""get_paths_filename_for_protein(ProteinsAnchorsSamplingSpace self, std::string const & prot_name) -> std::string"""
1951  return _IMP_multifit.ProteinsAnchorsSamplingSpace_get_paths_filename_for_protein(self, prot_name)
1952 
1953  def set_paths_for_protein(self, prot_name, paths):
1954  r"""set_paths_for_protein(ProteinsAnchorsSamplingSpace self, std::string const & prot_name, IMP::IntsList paths)"""
1955  return _IMP_multifit.ProteinsAnchorsSamplingSpace_set_paths_for_protein(self, prot_name, paths)
1956 
1957  def show(self, *args):
1958  r"""show(ProteinsAnchorsSamplingSpace self, _ostream s=std::cout)"""
1959  return _IMP_multifit.ProteinsAnchorsSamplingSpace_show(self, *args)
1960 
1961  def __str__(self):
1962  r"""__str__(ProteinsAnchorsSamplingSpace self) -> std::string"""
1963  return _IMP_multifit.ProteinsAnchorsSamplingSpace___str__(self)
1964 
1965  def __repr__(self):
1966  r"""__repr__(ProteinsAnchorsSamplingSpace self) -> std::string"""
1967  return _IMP_multifit.ProteinsAnchorsSamplingSpace___repr__(self)
1968  __swig_destroy__ = _IMP_multifit.delete_ProteinsAnchorsSamplingSpace
1969 
1970 # Register ProteinsAnchorsSamplingSpace in _IMP_multifit:
1971 _IMP_multifit.ProteinsAnchorsSamplingSpace_swigregister(ProteinsAnchorsSamplingSpace)
1972 
1973 def read_protein_anchors_mapping(*args):
1974  r"""read_protein_anchors_mapping(ProteomicsData prots, std::string const & anchors_prot_map_fn, int max_paths=INT_MAX) -> ProteinsAnchorsSamplingSpace"""
1975  return _IMP_multifit.read_protein_anchors_mapping(*args)
1976 
1977 def write_protein_anchors_mapping(*args):
1978  r"""
1979  write_protein_anchors_mapping(std::string const & anchors_prot_map_fn, std::string const & anchors_fn, std::vector< std::pair< IMP::String,IMP::String >,std::allocator< std::pair< IMP::String,IMP::String > > > const & prot_paths)
1980  write_protein_anchors_mapping(std::string const & anchors_prot_map_fn, ProteinsAnchorsSamplingSpace pa, IMP::Strings const & prot_names)
1981  """
1982  return _IMP_multifit.write_protein_anchors_mapping(*args)
1983 
1984 def get_part_of_sampling_space(prots_ss, prot_names):
1985  r"""get_part_of_sampling_space(ProteinsAnchorsSamplingSpace prots_ss, IMP::Strings const & prot_names) -> ProteinsAnchorsSamplingSpace"""
1986  return _IMP_multifit.get_part_of_sampling_space(prots_ss, prot_names)
1987 
1988 def get_partial_assembly_setting_data(prots_sd, prot_names):
1989  r"""get_partial_assembly_setting_data(SettingsData prots_sd, IMP::Strings const & prot_names) -> SettingsData"""
1990  return _IMP_multifit.get_partial_assembly_setting_data(prots_sd, prot_names)
1991 
1992 def read_paths(*args):
1993  r"""read_paths(char const * txt_filename, int max_paths=INT_MAX) -> IMP::IntsList"""
1994  return _IMP_multifit.read_paths(*args)
1995 
1996 def write_paths(paths, txt_filename):
1997  r"""write_paths(IMP::IntsList const & paths, std::string const & txt_filename)"""
1998  return _IMP_multifit.write_paths(paths, txt_filename)
1999 
2000 def molecule2anchors(mh, k):
2001  r"""molecule2anchors(Hierarchy mh, int k) -> AnchorsData"""
2002  return _IMP_multifit.molecule2anchors(mh, k)
2003 
2004 def get_anchors_for_density(dmap, number_of_means, density_threshold, pdb_filename, cmm_filename, seg_filename, txt_filename):
2005  r"""get_anchors_for_density(DensityMap dmap, int number_of_means, float density_threshold, std::string pdb_filename, std::string cmm_filename, std::string seg_filename, std::string txt_filename)"""
2006  return _IMP_multifit.get_anchors_for_density(dmap, number_of_means, density_threshold, pdb_filename, cmm_filename, seg_filename, txt_filename)
2007 
2008 def get_anchor_indices_matching_secondary_structure(ad, ssrs, max_rmsd=0.7):
2009  r"""get_anchor_indices_matching_secondary_structure(AnchorsData ad, IMP::atom::SecondaryStructureResidues const & ssrs, IMP::Float max_rmsd=0.7) -> IMP::IntsList"""
2010  return _IMP_multifit.get_anchor_indices_matching_secondary_structure(ad, ssrs, max_rmsd)
2011 class DominoParams(object):
2012  r"""Proxy of C++ IMP::multifit::DominoParams class."""
2013 
2014  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2015 
2016  def __init__(self):
2017  r"""__init__(DominoParams self) -> DominoParams"""
2018  _IMP_multifit.DominoParams_swiginit(self, _IMP_multifit.new_DominoParams())
2019 
2020  def add(self, pt):
2021  r"""add(DominoParams self, boost::property_tree::ptree const & pt)"""
2022  return _IMP_multifit.DominoParams_add(self, pt)
2023 
2024  def show(self, *args):
2025  r"""show(DominoParams self, _ostream s=std::cout)"""
2026  return _IMP_multifit.DominoParams_show(self, *args)
2027  max_value_threshold_ = property(_IMP_multifit.DominoParams_max_value_threshold__get, _IMP_multifit.DominoParams_max_value_threshold__set, doc=r"""max_value_threshold_ : float""")
2028  max_num_states_for_subset_ = property(_IMP_multifit.DominoParams_max_num_states_for_subset__get, _IMP_multifit.DominoParams_max_num_states_for_subset__set, doc=r"""max_num_states_for_subset_ : int""")
2029  max_anchor_penetration_ = property(_IMP_multifit.DominoParams_max_anchor_penetration__get, _IMP_multifit.DominoParams_max_anchor_penetration__set, doc=r"""max_anchor_penetration_ : float""")
2030  heap_size_ = property(_IMP_multifit.DominoParams_heap_size__get, _IMP_multifit.DominoParams_heap_size__set, doc=r"""heap_size_ : int""")
2031  cache_size_ = property(_IMP_multifit.DominoParams_cache_size__get, _IMP_multifit.DominoParams_cache_size__set, doc=r"""cache_size_ : int""")
2032 
2033  def __str__(self):
2034  r"""__str__(DominoParams self) -> std::string"""
2035  return _IMP_multifit.DominoParams___str__(self)
2036 
2037  def __repr__(self):
2038  r"""__repr__(DominoParams self) -> std::string"""
2039  return _IMP_multifit.DominoParams___repr__(self)
2040 
2041  def _get_as_binary(self):
2042  r"""_get_as_binary(DominoParams self) -> PyObject *"""
2043  return _IMP_multifit.DominoParams__get_as_binary(self)
2044 
2045  def _set_from_binary(self, p):
2046  r"""_set_from_binary(DominoParams self, PyObject * p)"""
2047  return _IMP_multifit.DominoParams__set_from_binary(self, p)
2048 
2049  def __getstate__(self):
2050  p = self._get_as_binary()
2051  if len(self.__dict__) > 1:
2052  d = self.__dict__.copy()
2053  del d['this']
2054  p = (d, p)
2055  return p
2056 
2057  def __setstate__(self, p):
2058  if not hasattr(self, 'this'):
2059  self.__init__()
2060  if isinstance(p, tuple):
2061  d, p = p
2062  self.__dict__.update(d)
2063  return self._set_from_binary(p)
2064 
2065  __swig_destroy__ = _IMP_multifit.delete_DominoParams
2066 
2067 # Register DominoParams in _IMP_multifit:
2068 _IMP_multifit.DominoParams_swigregister(DominoParams)
2069 class XlinkParams(object):
2070  r"""Proxy of C++ IMP::multifit::XlinkParams class."""
2071 
2072  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2073 
2074  def __init__(self):
2075  r"""__init__(XlinkParams self) -> XlinkParams"""
2076  _IMP_multifit.XlinkParams_swiginit(self, _IMP_multifit.new_XlinkParams())
2077 
2078  def add(self, pt):
2079  r"""add(XlinkParams self, boost::property_tree::ptree const & pt)"""
2080  return _IMP_multifit.XlinkParams_add(self, pt)
2081 
2082  def show(self, *args):
2083  r"""show(XlinkParams self, _ostream s=std::cout)"""
2084  return _IMP_multifit.XlinkParams_show(self, *args)
2085  upper_bound_ = property(_IMP_multifit.XlinkParams_upper_bound__get, _IMP_multifit.XlinkParams_upper_bound__set, doc=r"""upper_bound_ : float""")
2086  k_ = property(_IMP_multifit.XlinkParams_k__get, _IMP_multifit.XlinkParams_k__set, doc=r"""k_ : float""")
2087  max_xlink_val_ = property(_IMP_multifit.XlinkParams_max_xlink_val__get, _IMP_multifit.XlinkParams_max_xlink_val__set, doc=r"""max_xlink_val_ : float""")
2088  treat_between_residues_ = property(_IMP_multifit.XlinkParams_treat_between_residues__get, _IMP_multifit.XlinkParams_treat_between_residues__set, doc=r"""treat_between_residues_ : bool""")
2089 
2090  def __str__(self):
2091  r"""__str__(XlinkParams self) -> std::string"""
2092  return _IMP_multifit.XlinkParams___str__(self)
2093 
2094  def __repr__(self):
2095  r"""__repr__(XlinkParams self) -> std::string"""
2096  return _IMP_multifit.XlinkParams___repr__(self)
2097 
2098  def _get_as_binary(self):
2099  r"""_get_as_binary(XlinkParams self) -> PyObject *"""
2100  return _IMP_multifit.XlinkParams__get_as_binary(self)
2101 
2102  def _set_from_binary(self, p):
2103  r"""_set_from_binary(XlinkParams self, PyObject * p)"""
2104  return _IMP_multifit.XlinkParams__set_from_binary(self, p)
2105 
2106  def __getstate__(self):
2107  p = self._get_as_binary()
2108  if len(self.__dict__) > 1:
2109  d = self.__dict__.copy()
2110  del d['this']
2111  p = (d, p)
2112  return p
2113 
2114  def __setstate__(self, p):
2115  if not hasattr(self, 'this'):
2116  self.__init__()
2117  if isinstance(p, tuple):
2118  d, p = p
2119  self.__dict__.update(d)
2120  return self._set_from_binary(p)
2121 
2122  __swig_destroy__ = _IMP_multifit.delete_XlinkParams
2123 
2124 # Register XlinkParams in _IMP_multifit:
2125 _IMP_multifit.XlinkParams_swigregister(XlinkParams)
2126 class ConnectivityParams(object):
2127  r"""Proxy of C++ IMP::multifit::ConnectivityParams class."""
2128 
2129  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2130 
2131  def __init__(self):
2132  r"""__init__(ConnectivityParams self) -> ConnectivityParams"""
2133  _IMP_multifit.ConnectivityParams_swiginit(self, _IMP_multifit.new_ConnectivityParams())
2134 
2135  def add(self, pt):
2136  r"""add(ConnectivityParams self, boost::property_tree::ptree const & pt)"""
2137  return _IMP_multifit.ConnectivityParams_add(self, pt)
2138 
2139  def show(self, *args):
2140  r"""show(ConnectivityParams self, _ostream s=std::cout)"""
2141  return _IMP_multifit.ConnectivityParams_show(self, *args)
2142  upper_bound_ = property(_IMP_multifit.ConnectivityParams_upper_bound__get, _IMP_multifit.ConnectivityParams_upper_bound__set, doc=r"""upper_bound_ : float""")
2143  k_ = property(_IMP_multifit.ConnectivityParams_k__get, _IMP_multifit.ConnectivityParams_k__set, doc=r"""k_ : float""")
2144  max_conn_rest_val_ = property(_IMP_multifit.ConnectivityParams_max_conn_rest_val__get, _IMP_multifit.ConnectivityParams_max_conn_rest_val__set, doc=r"""max_conn_rest_val_ : float""")
2145 
2146  def __str__(self):
2147  r"""__str__(ConnectivityParams self) -> std::string"""
2148  return _IMP_multifit.ConnectivityParams___str__(self)
2149 
2150  def __repr__(self):
2151  r"""__repr__(ConnectivityParams self) -> std::string"""
2152  return _IMP_multifit.ConnectivityParams___repr__(self)
2153 
2154  def _get_as_binary(self):
2155  r"""_get_as_binary(ConnectivityParams self) -> PyObject *"""
2156  return _IMP_multifit.ConnectivityParams__get_as_binary(self)
2157 
2158  def _set_from_binary(self, p):
2159  r"""_set_from_binary(ConnectivityParams self, PyObject * p)"""
2160  return _IMP_multifit.ConnectivityParams__set_from_binary(self, p)
2161 
2162  def __getstate__(self):
2163  p = self._get_as_binary()
2164  if len(self.__dict__) > 1:
2165  d = self.__dict__.copy()
2166  del d['this']
2167  p = (d, p)
2168  return p
2169 
2170  def __setstate__(self, p):
2171  if not hasattr(self, 'this'):
2172  self.__init__()
2173  if isinstance(p, tuple):
2174  d, p = p
2175  self.__dict__.update(d)
2176  return self._set_from_binary(p)
2177 
2178  __swig_destroy__ = _IMP_multifit.delete_ConnectivityParams
2179 
2180 # Register ConnectivityParams in _IMP_multifit:
2181 _IMP_multifit.ConnectivityParams_swigregister(ConnectivityParams)
2182 class FragmentsParams(object):
2183  r"""Proxy of C++ IMP::multifit::FragmentsParams class."""
2184 
2185  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2186 
2187  def __init__(self):
2188  r"""__init__(FragmentsParams self) -> FragmentsParams"""
2189  _IMP_multifit.FragmentsParams_swiginit(self, _IMP_multifit.new_FragmentsParams())
2190 
2191  def add(self, pt):
2192  r"""add(FragmentsParams self, boost::property_tree::ptree const & pt)"""
2193  return _IMP_multifit.FragmentsParams_add(self, pt)
2194 
2195  def show(self, *args):
2196  r"""show(FragmentsParams self, _ostream s=std::cout)"""
2197  return _IMP_multifit.FragmentsParams_show(self, *args)
2198  frag_len_ = property(_IMP_multifit.FragmentsParams_frag_len__get, _IMP_multifit.FragmentsParams_frag_len__set, doc=r"""frag_len_ : int""")
2199  bead_radius_scale_ = property(_IMP_multifit.FragmentsParams_bead_radius_scale__get, _IMP_multifit.FragmentsParams_bead_radius_scale__set, doc=r"""bead_radius_scale_ : float""")
2200  load_atomic_ = property(_IMP_multifit.FragmentsParams_load_atomic__get, _IMP_multifit.FragmentsParams_load_atomic__set, doc=r"""load_atomic_ : bool""")
2201  subunit_rigid_ = property(_IMP_multifit.FragmentsParams_subunit_rigid__get, _IMP_multifit.FragmentsParams_subunit_rigid__set, doc=r"""subunit_rigid_ : bool""")
2202 
2203  def __str__(self):
2204  r"""__str__(FragmentsParams self) -> std::string"""
2205  return _IMP_multifit.FragmentsParams___str__(self)
2206 
2207  def __repr__(self):
2208  r"""__repr__(FragmentsParams self) -> std::string"""
2209  return _IMP_multifit.FragmentsParams___repr__(self)
2210 
2211  def _get_as_binary(self):
2212  r"""_get_as_binary(FragmentsParams self) -> PyObject *"""
2213  return _IMP_multifit.FragmentsParams__get_as_binary(self)
2214 
2215  def _set_from_binary(self, p):
2216  r"""_set_from_binary(FragmentsParams self, PyObject * p)"""
2217  return _IMP_multifit.FragmentsParams__set_from_binary(self, p)
2218 
2219  def __getstate__(self):
2220  p = self._get_as_binary()
2221  if len(self.__dict__) > 1:
2222  d = self.__dict__.copy()
2223  del d['this']
2224  p = (d, p)
2225  return p
2226 
2227  def __setstate__(self, p):
2228  if not hasattr(self, 'this'):
2229  self.__init__()
2230  if isinstance(p, tuple):
2231  d, p = p
2232  self.__dict__.update(d)
2233  return self._set_from_binary(p)
2234 
2235  __swig_destroy__ = _IMP_multifit.delete_FragmentsParams
2236 
2237 # Register FragmentsParams in _IMP_multifit:
2238 _IMP_multifit.FragmentsParams_swigregister(FragmentsParams)
2239 class RogParams(object):
2240  r"""Proxy of C++ IMP::multifit::RogParams class."""
2241 
2242  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2243 
2244  def __init__(self):
2245  r"""__init__(RogParams self) -> RogParams"""
2246  _IMP_multifit.RogParams_swiginit(self, _IMP_multifit.new_RogParams())
2247 
2248  def add(self, pt):
2249  r"""add(RogParams self, boost::property_tree::ptree const & pt)"""
2250  return _IMP_multifit.RogParams_add(self, pt)
2251 
2252  def get_max_score(self):
2253  r"""get_max_score(RogParams self) -> float"""
2254  return _IMP_multifit.RogParams_get_max_score(self)
2255 
2256  def get_scale(self):
2257  r"""get_scale(RogParams self) -> float"""
2258  return _IMP_multifit.RogParams_get_scale(self)
2259 
2260  def show(self, *args):
2261  r"""show(RogParams self, _ostream s=std::cout)"""
2262  return _IMP_multifit.RogParams_show(self, *args)
2263 
2264  def __str__(self):
2265  r"""__str__(RogParams self) -> std::string"""
2266  return _IMP_multifit.RogParams___str__(self)
2267 
2268  def __repr__(self):
2269  r"""__repr__(RogParams self) -> std::string"""
2270  return _IMP_multifit.RogParams___repr__(self)
2271 
2272  def _get_as_binary(self):
2273  r"""_get_as_binary(RogParams self) -> PyObject *"""
2274  return _IMP_multifit.RogParams__get_as_binary(self)
2275 
2276  def _set_from_binary(self, p):
2277  r"""_set_from_binary(RogParams self, PyObject * p)"""
2278  return _IMP_multifit.RogParams__set_from_binary(self, p)
2279 
2280  def __getstate__(self):
2281  p = self._get_as_binary()
2282  if len(self.__dict__) > 1:
2283  d = self.__dict__.copy()
2284  del d['this']
2285  p = (d, p)
2286  return p
2287 
2288  def __setstate__(self, p):
2289  if not hasattr(self, 'this'):
2290  self.__init__()
2291  if isinstance(p, tuple):
2292  d, p = p
2293  self.__dict__.update(d)
2294  return self._set_from_binary(p)
2295 
2296  __swig_destroy__ = _IMP_multifit.delete_RogParams
2297 
2298 # Register RogParams in _IMP_multifit:
2299 _IMP_multifit.RogParams_swigregister(RogParams)
2300 class EVParams(object):
2301  r"""Proxy of C++ IMP::multifit::EVParams class."""
2302 
2303  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2304 
2305  def __init__(self):
2306  r"""__init__(EVParams self) -> EVParams"""
2307  _IMP_multifit.EVParams_swiginit(self, _IMP_multifit.new_EVParams())
2308 
2309  def add(self, pt):
2310  r"""add(EVParams self, boost::property_tree::ptree const & pt)"""
2311  return _IMP_multifit.EVParams_add(self, pt)
2312 
2313  def show(self, *args):
2314  r"""show(EVParams self, _ostream s=std::cout)"""
2315  return _IMP_multifit.EVParams_show(self, *args)
2316  pair_distance_ = property(_IMP_multifit.EVParams_pair_distance__get, _IMP_multifit.EVParams_pair_distance__set, doc=r"""pair_distance_ : float""")
2317  pair_slack_ = property(_IMP_multifit.EVParams_pair_slack__get, _IMP_multifit.EVParams_pair_slack__set, doc=r"""pair_slack_ : float""")
2318  hlb_mean_ = property(_IMP_multifit.EVParams_hlb_mean__get, _IMP_multifit.EVParams_hlb_mean__set, doc=r"""hlb_mean_ : float""")
2319  hlb_k_ = property(_IMP_multifit.EVParams_hlb_k__get, _IMP_multifit.EVParams_hlb_k__set, doc=r"""hlb_k_ : float""")
2320  maximum_ev_score_for_pair_ = property(_IMP_multifit.EVParams_maximum_ev_score_for_pair__get, _IMP_multifit.EVParams_maximum_ev_score_for_pair__set, doc=r"""maximum_ev_score_for_pair_ : float""")
2321  allowed_percentage_of_bad_pairs_ = property(_IMP_multifit.EVParams_allowed_percentage_of_bad_pairs__get, _IMP_multifit.EVParams_allowed_percentage_of_bad_pairs__set, doc=r"""allowed_percentage_of_bad_pairs_ : float""")
2322  scoring_mode_ = property(_IMP_multifit.EVParams_scoring_mode__get, _IMP_multifit.EVParams_scoring_mode__set, doc=r"""scoring_mode_ : int""")
2323 
2324  def __str__(self):
2325  r"""__str__(EVParams self) -> std::string"""
2326  return _IMP_multifit.EVParams___str__(self)
2327 
2328  def __repr__(self):
2329  r"""__repr__(EVParams self) -> std::string"""
2330  return _IMP_multifit.EVParams___repr__(self)
2331 
2332  def _get_as_binary(self):
2333  r"""_get_as_binary(EVParams self) -> PyObject *"""
2334  return _IMP_multifit.EVParams__get_as_binary(self)
2335 
2336  def _set_from_binary(self, p):
2337  r"""_set_from_binary(EVParams self, PyObject * p)"""
2338  return _IMP_multifit.EVParams__set_from_binary(self, p)
2339 
2340  def __getstate__(self):
2341  p = self._get_as_binary()
2342  if len(self.__dict__) > 1:
2343  d = self.__dict__.copy()
2344  del d['this']
2345  p = (d, p)
2346  return p
2347 
2348  def __setstate__(self, p):
2349  if not hasattr(self, 'this'):
2350  self.__init__()
2351  if isinstance(p, tuple):
2352  d, p = p
2353  self.__dict__.update(d)
2354  return self._set_from_binary(p)
2355 
2356  __swig_destroy__ = _IMP_multifit.delete_EVParams
2357 
2358 # Register EVParams in _IMP_multifit:
2359 _IMP_multifit.EVParams_swigregister(EVParams)
2360 class FiltersParams(object):
2361  r"""Proxy of C++ IMP::multifit::FiltersParams class."""
2362 
2363  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2364 
2365  def __init__(self):
2366  r"""__init__(FiltersParams self) -> FiltersParams"""
2367  _IMP_multifit.FiltersParams_swiginit(self, _IMP_multifit.new_FiltersParams())
2368 
2369  def add(self, pt):
2370  r"""add(FiltersParams self, boost::property_tree::ptree const & pt)"""
2371  return _IMP_multifit.FiltersParams_add(self, pt)
2372 
2373  def show(self, *args):
2374  r"""show(FiltersParams self, _ostream s=std::cout)"""
2375  return _IMP_multifit.FiltersParams_show(self, *args)
2376  max_num_violated_xlink_ = property(_IMP_multifit.FiltersParams_max_num_violated_xlink__get, _IMP_multifit.FiltersParams_max_num_violated_xlink__set, doc=r"""max_num_violated_xlink_ : int""")
2377  max_num_violated_conn_ = property(_IMP_multifit.FiltersParams_max_num_violated_conn__get, _IMP_multifit.FiltersParams_max_num_violated_conn__set, doc=r"""max_num_violated_conn_ : int""")
2378  max_num_violated_ev_ = property(_IMP_multifit.FiltersParams_max_num_violated_ev__get, _IMP_multifit.FiltersParams_max_num_violated_ev__set, doc=r"""max_num_violated_ev_ : int""")
2379 
2380  def __str__(self):
2381  r"""__str__(FiltersParams self) -> std::string"""
2382  return _IMP_multifit.FiltersParams___str__(self)
2383 
2384  def __repr__(self):
2385  r"""__repr__(FiltersParams self) -> std::string"""
2386  return _IMP_multifit.FiltersParams___repr__(self)
2387 
2388  def _get_as_binary(self):
2389  r"""_get_as_binary(FiltersParams self) -> PyObject *"""
2390  return _IMP_multifit.FiltersParams__get_as_binary(self)
2391 
2392  def _set_from_binary(self, p):
2393  r"""_set_from_binary(FiltersParams self, PyObject * p)"""
2394  return _IMP_multifit.FiltersParams__set_from_binary(self, p)
2395 
2396  def __getstate__(self):
2397  p = self._get_as_binary()
2398  if len(self.__dict__) > 1:
2399  d = self.__dict__.copy()
2400  del d['this']
2401  p = (d, p)
2402  return p
2403 
2404  def __setstate__(self, p):
2405  if not hasattr(self, 'this'):
2406  self.__init__()
2407  if isinstance(p, tuple):
2408  d, p = p
2409  self.__dict__.update(d)
2410  return self._set_from_binary(p)
2411 
2412  __swig_destroy__ = _IMP_multifit.delete_FiltersParams
2413 
2414 # Register FiltersParams in _IMP_multifit:
2415 _IMP_multifit.FiltersParams_swigregister(FiltersParams)
2416 class FittingParams(object):
2417  r"""Proxy of C++ IMP::multifit::FittingParams class."""
2418 
2419  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2420 
2421  def __init__(self):
2422  r"""__init__(FittingParams self) -> FittingParams"""
2423  _IMP_multifit.FittingParams_swiginit(self, _IMP_multifit.new_FittingParams())
2424 
2425  def add(self, pt):
2426  r"""add(FittingParams self, boost::property_tree::ptree const & pt)"""
2427  return _IMP_multifit.FittingParams_add(self, pt)
2428 
2429  def show(self, *args):
2430  r"""show(FittingParams self, _ostream s=std::cout)"""
2431  return _IMP_multifit.FittingParams_show(self, *args)
2432  pca_max_angle_diff_ = property(_IMP_multifit.FittingParams_pca_max_angle_diff__get, _IMP_multifit.FittingParams_pca_max_angle_diff__set, doc=r"""pca_max_angle_diff_ : float""")
2433  pca_max_size_diff_ = property(_IMP_multifit.FittingParams_pca_max_size_diff__get, _IMP_multifit.FittingParams_pca_max_size_diff__set, doc=r"""pca_max_size_diff_ : float""")
2434  pca_max_cent_dist_diff_ = property(_IMP_multifit.FittingParams_pca_max_cent_dist_diff__get, _IMP_multifit.FittingParams_pca_max_cent_dist_diff__set, doc=r"""pca_max_cent_dist_diff_ : float""")
2435  max_asmb_fit_score_ = property(_IMP_multifit.FittingParams_max_asmb_fit_score__get, _IMP_multifit.FittingParams_max_asmb_fit_score__set, doc=r"""max_asmb_fit_score_ : float""")
2436 
2437  def __str__(self):
2438  r"""__str__(FittingParams self) -> std::string"""
2439  return _IMP_multifit.FittingParams___str__(self)
2440 
2441  def __repr__(self):
2442  r"""__repr__(FittingParams self) -> std::string"""
2443  return _IMP_multifit.FittingParams___repr__(self)
2444 
2445  def _get_as_binary(self):
2446  r"""_get_as_binary(FittingParams self) -> PyObject *"""
2447  return _IMP_multifit.FittingParams__get_as_binary(self)
2448 
2449  def _set_from_binary(self, p):
2450  r"""_set_from_binary(FittingParams self, PyObject * p)"""
2451  return _IMP_multifit.FittingParams__set_from_binary(self, p)
2452 
2453  def __getstate__(self):
2454  p = self._get_as_binary()
2455  if len(self.__dict__) > 1:
2456  d = self.__dict__.copy()
2457  del d['this']
2458  p = (d, p)
2459  return p
2460 
2461  def __setstate__(self, p):
2462  if not hasattr(self, 'this'):
2463  self.__init__()
2464  if isinstance(p, tuple):
2465  d, p = p
2466  self.__dict__.update(d)
2467  return self._set_from_binary(p)
2468 
2469  __swig_destroy__ = _IMP_multifit.delete_FittingParams
2470 
2471 # Register FittingParams in _IMP_multifit:
2472 _IMP_multifit.FittingParams_swigregister(FittingParams)
2473 class ComplementarityParams(object):
2474  r"""Proxy of C++ IMP::multifit::ComplementarityParams class."""
2475 
2476  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2477 
2478  def __init__(self):
2479  r"""__init__(ComplementarityParams self) -> ComplementarityParams"""
2480  _IMP_multifit.ComplementarityParams_swiginit(self, _IMP_multifit.new_ComplementarityParams())
2481 
2482  def add(self, pt):
2483  r"""add(ComplementarityParams self, boost::property_tree::ptree const & pt)"""
2484  return _IMP_multifit.ComplementarityParams_add(self, pt)
2485 
2486  def show(self, *args):
2487  r"""show(ComplementarityParams self, _ostream s=std::cout)"""
2488  return _IMP_multifit.ComplementarityParams_show(self, *args)
2489  max_score_ = property(_IMP_multifit.ComplementarityParams_max_score__get, _IMP_multifit.ComplementarityParams_max_score__set, doc=r"""max_score_ : float""")
2490  max_penetration_ = property(_IMP_multifit.ComplementarityParams_max_penetration__get, _IMP_multifit.ComplementarityParams_max_penetration__set, doc=r"""max_penetration_ : float""")
2491  interior_layer_thickness_ = property(_IMP_multifit.ComplementarityParams_interior_layer_thickness__get, _IMP_multifit.ComplementarityParams_interior_layer_thickness__set, doc=r"""interior_layer_thickness_ : float""")
2492  boundary_coef_ = property(_IMP_multifit.ComplementarityParams_boundary_coef__get, _IMP_multifit.ComplementarityParams_boundary_coef__set, doc=r"""boundary_coef_ : float""")
2493  comp_coef_ = property(_IMP_multifit.ComplementarityParams_comp_coef__get, _IMP_multifit.ComplementarityParams_comp_coef__set, doc=r"""comp_coef_ : float""")
2494  penetration_coef_ = property(_IMP_multifit.ComplementarityParams_penetration_coef__get, _IMP_multifit.ComplementarityParams_penetration_coef__set, doc=r"""penetration_coef_ : float""")
2495 
2496  def __str__(self):
2497  r"""__str__(ComplementarityParams self) -> std::string"""
2498  return _IMP_multifit.ComplementarityParams___str__(self)
2499 
2500  def __repr__(self):
2501  r"""__repr__(ComplementarityParams self) -> std::string"""
2502  return _IMP_multifit.ComplementarityParams___repr__(self)
2503 
2504  def _get_as_binary(self):
2505  r"""_get_as_binary(ComplementarityParams self) -> PyObject *"""
2506  return _IMP_multifit.ComplementarityParams__get_as_binary(self)
2507 
2508  def _set_from_binary(self, p):
2509  r"""_set_from_binary(ComplementarityParams self, PyObject * p)"""
2510  return _IMP_multifit.ComplementarityParams__set_from_binary(self, p)
2511 
2512  def __getstate__(self):
2513  p = self._get_as_binary()
2514  if len(self.__dict__) > 1:
2515  d = self.__dict__.copy()
2516  del d['this']
2517  p = (d, p)
2518  return p
2519 
2520  def __setstate__(self, p):
2521  if not hasattr(self, 'this'):
2522  self.__init__()
2523  if isinstance(p, tuple):
2524  d, p = p
2525  self.__dict__.update(d)
2526  return self._set_from_binary(p)
2527 
2528  __swig_destroy__ = _IMP_multifit.delete_ComplementarityParams
2529 
2530 # Register ComplementarityParams in _IMP_multifit:
2531 _IMP_multifit.ComplementarityParams_swigregister(ComplementarityParams)
2532 class AlignmentParams(object):
2533  r"""Proxy of C++ IMP::multifit::AlignmentParams class."""
2534 
2535  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2536 
2537  def __init__(self, *args):
2538  r"""
2539  __init__(AlignmentParams self) -> AlignmentParams
2540  __init__(AlignmentParams self, char const * param_filename) -> AlignmentParams
2541  """
2542  _IMP_multifit.AlignmentParams_swiginit(self, _IMP_multifit.new_AlignmentParams(*args))
2543 
2544  def get_domino_params(self):
2545  r"""get_domino_params(AlignmentParams self) -> DominoParams"""
2546  return _IMP_multifit.AlignmentParams_get_domino_params(self)
2547 
2548  def get_fitting_params(self):
2549  r"""get_fitting_params(AlignmentParams self) -> FittingParams"""
2550  return _IMP_multifit.AlignmentParams_get_fitting_params(self)
2551 
2552  def get_complementarity_params(self):
2553  r"""get_complementarity_params(AlignmentParams self) -> ComplementarityParams"""
2554  return _IMP_multifit.AlignmentParams_get_complementarity_params(self)
2555 
2556  def get_xlink_params(self):
2557  r"""get_xlink_params(AlignmentParams self) -> XlinkParams"""
2558  return _IMP_multifit.AlignmentParams_get_xlink_params(self)
2559 
2560  def get_connectivity_params(self):
2561  r"""get_connectivity_params(AlignmentParams self) -> ConnectivityParams"""
2562  return _IMP_multifit.AlignmentParams_get_connectivity_params(self)
2563 
2564  def get_rog_params(self):
2565  r"""get_rog_params(AlignmentParams self) -> RogParams"""
2566  return _IMP_multifit.AlignmentParams_get_rog_params(self)
2567 
2568  def get_fragments_params(self):
2569  r"""get_fragments_params(AlignmentParams self) -> FragmentsParams"""
2570  return _IMP_multifit.AlignmentParams_get_fragments_params(self)
2571 
2572  def get_filters_params(self):
2573  r"""get_filters_params(AlignmentParams self) -> FiltersParams"""
2574  return _IMP_multifit.AlignmentParams_get_filters_params(self)
2575 
2576  def get_ev_params(self):
2577  r"""get_ev_params(AlignmentParams self) -> EVParams"""
2578  return _IMP_multifit.AlignmentParams_get_ev_params(self)
2579 
2580  def show(self, *args):
2581  r"""show(AlignmentParams self, _ostream s=std::cout)"""
2582  return _IMP_multifit.AlignmentParams_show(self, *args)
2583 
2584  def __str__(self):
2585  r"""__str__(AlignmentParams self) -> std::string"""
2586  return _IMP_multifit.AlignmentParams___str__(self)
2587 
2588  def __repr__(self):
2589  r"""__repr__(AlignmentParams self) -> std::string"""
2590  return _IMP_multifit.AlignmentParams___repr__(self)
2591 
2592  def _get_as_binary(self):
2593  r"""_get_as_binary(AlignmentParams self) -> PyObject *"""
2594  return _IMP_multifit.AlignmentParams__get_as_binary(self)
2595 
2596  def _set_from_binary(self, p):
2597  r"""_set_from_binary(AlignmentParams self, PyObject * p)"""
2598  return _IMP_multifit.AlignmentParams__set_from_binary(self, p)
2599 
2600  def __getstate__(self):
2601  p = self._get_as_binary()
2602  if len(self.__dict__) > 1:
2603  d = self.__dict__.copy()
2604  del d['this']
2605  p = (d, p)
2606  return p
2607 
2608  def __setstate__(self, p):
2609  if not hasattr(self, 'this'):
2610  self.__init__()
2611  if isinstance(p, tuple):
2612  d, p = p
2613  self.__dict__.update(d)
2614  return self._set_from_binary(p)
2615 
2616  __swig_destroy__ = _IMP_multifit.delete_AlignmentParams
2617 
2618 # Register AlignmentParams in _IMP_multifit:
2619 _IMP_multifit.AlignmentParams_swigregister(AlignmentParams)
2620 class ProteomicsEMAlignmentAtomic(IMP.Object):
2621  r"""Proxy of C++ IMP::multifit::ProteomicsEMAlignmentAtomic class."""
2622 
2623  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2624 
2625  def __init__(self, mapping_data, asmb_data, align_param):
2626  r"""__init__(ProteomicsEMAlignmentAtomic self, ProteinsAnchorsSamplingSpace mapping_data, SettingsData asmb_data, AlignmentParams align_param) -> ProteomicsEMAlignmentAtomic"""
2627  _IMP_multifit.ProteomicsEMAlignmentAtomic_swiginit(self, _IMP_multifit.new_ProteomicsEMAlignmentAtomic(mapping_data, asmb_data, align_param))
2628 
2629  def align(self):
2630  r"""align(ProteomicsEMAlignmentAtomic self)"""
2631  return _IMP_multifit.ProteomicsEMAlignmentAtomic_align(self)
2632 
2633  def add_all_restraints(self):
2634  r"""add_all_restraints(ProteomicsEMAlignmentAtomic self)"""
2635  return _IMP_multifit.ProteomicsEMAlignmentAtomic_add_all_restraints(self)
2636 
2637  def get_restraint_set(self):
2638  r"""get_restraint_set(ProteomicsEMAlignmentAtomic self) -> RestraintSet"""
2639  return _IMP_multifit.ProteomicsEMAlignmentAtomic_get_restraint_set(self)
2640 
2641  def add_states_and_filters(self):
2642  r"""add_states_and_filters(ProteomicsEMAlignmentAtomic self)"""
2643  return _IMP_multifit.ProteomicsEMAlignmentAtomic_add_states_and_filters(self)
2644 
2645  def show_domino_merge_tree(self):
2646  r"""show_domino_merge_tree(ProteomicsEMAlignmentAtomic self)"""
2647  return _IMP_multifit.ProteomicsEMAlignmentAtomic_show_domino_merge_tree(self)
2648 
2649  def get_combinations(self, uniques=False):
2650  r"""get_combinations(ProteomicsEMAlignmentAtomic self, bool uniques=False) -> IMP::domino::Assignments"""
2651  return _IMP_multifit.ProteomicsEMAlignmentAtomic_get_combinations(self, uniques)
2652 
2653  def set_density_map(self, dmap, threshold):
2654  r"""set_density_map(ProteomicsEMAlignmentAtomic self, DensityMap dmap, float threshold)"""
2655  return _IMP_multifit.ProteomicsEMAlignmentAtomic_set_density_map(self, dmap, threshold)
2656 
2657  def get_molecules(self):
2658  r"""get_molecules(ProteomicsEMAlignmentAtomic self) -> IMP::atom::Hierarchies"""
2659  return _IMP_multifit.ProteomicsEMAlignmentAtomic_get_molecules(self)
2660 
2661  def get_rigid_bodies(self):
2662  r"""get_rigid_bodies(ProteomicsEMAlignmentAtomic self) -> IMP::core::RigidBodies"""
2663  return _IMP_multifit.ProteomicsEMAlignmentAtomic_get_rigid_bodies(self)
2664 
2665  def load_combination_of_states(self, state4particles):
2666  r"""load_combination_of_states(ProteomicsEMAlignmentAtomic self, IMP::Ints const & state4particles)"""
2667  return _IMP_multifit.ProteomicsEMAlignmentAtomic_load_combination_of_states(self, state4particles)
2668 
2669  def show_scores_header(self, *args):
2670  r"""show_scores_header(ProteomicsEMAlignmentAtomic self, _ostream ous=std::cout)"""
2671  return _IMP_multifit.ProteomicsEMAlignmentAtomic_show_scores_header(self, *args)
2672 
2673  def get_model(self):
2674  r"""get_model(ProteomicsEMAlignmentAtomic self) -> Model"""
2675  return _IMP_multifit.ProteomicsEMAlignmentAtomic_get_model(self)
2676 
2677  def set_fast_scoring(self, state):
2678  r"""set_fast_scoring(ProteomicsEMAlignmentAtomic self, bool state)"""
2679  return _IMP_multifit.ProteomicsEMAlignmentAtomic_set_fast_scoring(self, state)
2680 
2681  def get_version_info(self):
2682  r"""get_version_info(ProteomicsEMAlignmentAtomic self) -> VersionInfo"""
2683  return _IMP_multifit.ProteomicsEMAlignmentAtomic_get_version_info(self)
2684  __swig_destroy__ = _IMP_multifit.delete_ProteomicsEMAlignmentAtomic
2685 
2686  def __str__(self):
2687  r"""__str__(ProteomicsEMAlignmentAtomic self) -> std::string"""
2688  return _IMP_multifit.ProteomicsEMAlignmentAtomic___str__(self)
2689 
2690  def __repr__(self):
2691  r"""__repr__(ProteomicsEMAlignmentAtomic self) -> std::string"""
2692  return _IMP_multifit.ProteomicsEMAlignmentAtomic___repr__(self)
2693 
2694  @staticmethod
2695  def get_from(o):
2696  return _object_cast_to_ProteomicsEMAlignmentAtomic(o)
2697 
2698 
2699 # Register ProteomicsEMAlignmentAtomic in _IMP_multifit:
2700 _IMP_multifit.ProteomicsEMAlignmentAtomic_swigregister(ProteomicsEMAlignmentAtomic)
2701 
2702 def write_connolly_surface(atoms, fn, density, probe_radius):
2703  r"""write_connolly_surface(IMP::atom::Atoms atoms, TextOutput fn, float density, float probe_radius)"""
2704  return _IMP_multifit.write_connolly_surface(atoms, fn, density, probe_radius)
2705 class Ensemble(IMP.Object):
2706  r"""Proxy of C++ IMP::multifit::Ensemble class."""
2707 
2708  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2709 
2710  def load_combination(self, fit_comb):
2711  r"""load_combination(Ensemble self, IMP::Ints fit_comb)"""
2712  return _IMP_multifit.Ensemble_load_combination(self, fit_comb)
2713 
2714  def unload_combination(self, fit_comb):
2715  r"""unload_combination(Ensemble self, IMP::Ints fit_comb)"""
2716  return _IMP_multifit.Ensemble_unload_combination(self, fit_comb)
2717 
2718  def add_component_and_fits(self, mh, fits):
2719  r"""add_component_and_fits(Ensemble self, Hierarchy mh, IMP::multifit::FittingSolutionRecords const & fits)"""
2720  return _IMP_multifit.Ensemble_add_component_and_fits(self, mh, fits)
2721 
2722  def get_molecules(self):
2723  r"""get_molecules(Ensemble self) -> IMP::atom::Hierarchies"""
2724  return _IMP_multifit.Ensemble_get_molecules(self)
2725 
2726  def get_rigid_bodies(self):
2727  r"""get_rigid_bodies(Ensemble self) -> IMP::core::RigidBodies"""
2728  return _IMP_multifit.Ensemble_get_rigid_bodies(self)
2729 
2730  def get_rmsd(self, second_xyz):
2731  r"""get_rmsd(Ensemble self, IMP::core::XYZs const & second_xyz) -> float"""
2732  return _IMP_multifit.Ensemble_get_rmsd(self, second_xyz)
2733 
2734  def __init__(self, sd, mapping_data):
2735  r"""__init__(Ensemble self, SettingsData sd, ProteinsAnchorsSamplingSpace mapping_data) -> Ensemble"""
2736  _IMP_multifit.Ensemble_swiginit(self, _IMP_multifit.new_Ensemble(sd, mapping_data))
2737 
2738  def score_by_restraints(self, rs, combinations):
2739  r"""score_by_restraints(Ensemble self, IMP::Restraints rs, IMP::IntsList const & combinations) -> std::vector< IMP::Floats,std::allocator< IMP::Floats > >"""
2740  return _IMP_multifit.Ensemble_score_by_restraints(self, rs, combinations)
2741 
2742  def get_version_info(self):
2743  r"""get_version_info(Ensemble self) -> VersionInfo"""
2744  return _IMP_multifit.Ensemble_get_version_info(self)
2745  __swig_destroy__ = _IMP_multifit.delete_Ensemble
2746 
2747  def __str__(self):
2748  r"""__str__(Ensemble self) -> std::string"""
2749  return _IMP_multifit.Ensemble___str__(self)
2750 
2751  def __repr__(self):
2752  r"""__repr__(Ensemble self) -> std::string"""
2753  return _IMP_multifit.Ensemble___repr__(self)
2754 
2755  @staticmethod
2756  def get_from(o):
2757  return _object_cast_to_Ensemble(o)
2758 
2759 
2760 # Register Ensemble in _IMP_multifit:
2761 _IMP_multifit.Ensemble_swigregister(Ensemble)
2762 
2763 def load_ensemble(sd, mdl, mapping_data):
2764  r"""load_ensemble(SettingsData sd, Model mdl, ProteinsAnchorsSamplingSpace mapping_data) -> Ensemble"""
2765  return _IMP_multifit.load_ensemble(sd, mdl, mapping_data)
2766 class RigidLeavesRefiner(IMP.Refiner):
2767  r"""Proxy of C++ IMP::multifit::RigidLeavesRefiner class."""
2768 
2769  thisown = property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc="The membership flag")
2770 
2771  def __init__(self, *args):
2772  r"""__init__(RigidLeavesRefiner self, std::string name="RigidLeavesRefiner%d") -> RigidLeavesRefiner"""
2773  _IMP_multifit.RigidLeavesRefiner_swiginit(self, _IMP_multifit.new_RigidLeavesRefiner(*args))
2774 
2775  def do_get_inputs(self, m, pis):
2776  r"""do_get_inputs(RigidLeavesRefiner self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
2777  return _IMP_multifit.RigidLeavesRefiner_do_get_inputs(self, m, pis)
2778 
2779  def get_version_info(self):
2780  r"""get_version_info(RigidLeavesRefiner self) -> VersionInfo"""
2781  return _IMP_multifit.RigidLeavesRefiner_get_version_info(self)
2782  __swig_destroy__ = _IMP_multifit.delete_RigidLeavesRefiner
2783 
2784  def __str__(self):
2785  r"""__str__(RigidLeavesRefiner self) -> std::string"""
2786  return _IMP_multifit.RigidLeavesRefiner___str__(self)
2787 
2788  def __repr__(self):
2789  r"""__repr__(RigidLeavesRefiner self) -> std::string"""
2790  return _IMP_multifit.RigidLeavesRefiner___repr__(self)
2791 
2792  @staticmethod
2793  def get_from(o):
2794  return _object_cast_to_RigidLeavesRefiner(o)
2795 
2796 
2797 # Register RigidLeavesRefiner in _IMP_multifit:
2798 _IMP_multifit.RigidLeavesRefiner_swigregister(RigidLeavesRefiner)
2799 
2800 _all_commands = ["param", "anchors", "fit_fft", "cluster", "add_fit_rmsd",
2801  "indexes", "proteomics", "align", "models", "transforms",
2802  "score", "merge_tree", "reference", "refine_fft", "segment"]
2803 
2804 
2805 def get_module_version():
2806  r"""get_module_version() -> std::string const"""
2807  return _IMP_multifit.get_module_version()
2808 
2809 def get_example_path(fname):
2810  r"""get_example_path(std::string fname) -> std::string"""
2811  return _IMP_multifit.get_example_path(fname)
2812 
2813 def get_data_path(fname):
2814  r"""get_data_path(std::string fname) -> std::string"""
2815  return _IMP_multifit.get_data_path(fname)
2816 
2817 from . import _version_check
2818 _version_check.check_version(get_module_version())
2819 __version__ = get_module_version()
2820 
2821 
IntsList get_anchor_indices_matching_secondary_structure(const AnchorsData &ad, const atom::SecondaryStructureResidues &ssrs, Float max_rmsd=0.7)
Get lists of anchors that match a sequence of secondary structures.
FittingSolutionRecords get_close_to_point(const FittingSolutionRecords &fit_sols, atom::Hierarchy mh, IMP::Particle *ap, Float dist)
prune solutions by distance to an anchor point
std::string get_example_path(std::string file_name)
Return the full path to one of this module's example files.
IntsList get_connected_components(em::DensityMap *dmap, float threshold, float edge_threshold)
Return connected components based on density values.
Various classes to hold sets of particles.
Make CGAL functionality available to IMP.
em::DensityMap * remove_background(em::DensityMap *dmap, float threshold, float edge_threshold)
Returns a map containing all density without the background.
ProteinsAnchorsSamplingSpace get_part_of_sampling_space(const ProteinsAnchorsSamplingSpace &prots_ss, const Strings &prot_names)
Get the sampling space of few of the proteins.
std::string get_module_version()
Return the version of this module, as a string.
std::string get_data_path(std::string file_name)
Return the full path to one of this module's data files.
multifit::SettingsData * get_partial_assembly_setting_data(multifit::SettingsData *prots_sd, const Strings &prot_names)
Get the assembly data for a few of the proteins.
Composable functors to implement scores via compile-time composition.
em::FittingSolutions pca_based_rigid_fitting(core::RigidBody rb, Refiner *rb_refiner, em::DensityMap *em_map, Float threshold, FloatKey wei_key=atom::Mass::get_mass_key(), algebra::PrincipalComponentAnalysis dens_pca_input=algebra::PrincipalComponentAnalysis())
Compute fitting scores for a given set of rigid transformations.
Code to compute statistical measures.
void add_surface_index(core::Hierarchy mhd, Float apix, FloatKey shell_key=FloatKey("surf_ind"), FloatKey radius_key=core::XYZR::get_radius_key(), FloatKey weight_key=atom::Mass::get_mass_key())
Add shell index to leaves.
Ints get_index(const ParticlesTemp &particles, const Subset &subset, const Subsets &excluded)
Common base class for heavy weight IMP objects.
Definition: Object.h:111
void get_anchors_for_density(em::DensityMap *dmap, int number_of_means, float density_threshold, std::string pdb_filename, std::string cmm_filename, std::string seg_filename, std::string txt_filename)
Generate anchors in several formats for a given density map.
double get_rmsd(const Vector3DsOrXYZs0 &m1, const Vector3DsOrXYZs1 &m2)
double get_radius_of_gyration(const Vector3Ds &ps)
Return the radius of gyration of a set of points.
Definition: Vector3D.h:77
Basic utilities for handling cryo-electron microscopy 3D density maps.
void write_fitting_solutions(const char *fitting_fn, const FittingSolutionRecords &fit_sols, int num_sols=-1)
Write fitting solutions to a file.
ProteomicsData * read_proteomics_data(const char *proteomics_fn)
Proteomics reader.
IMP::Restraint * create_weighted_excluded_volume_restraint(core::RigidBody rb1, core::RigidBody rb2, FloatKey shell_key=FloatKey("surf_ind"))
Create a weighted excluded volume restraint between two rigid bodies.
algebra::Vector3Ds get_points_close_to_molecule(const atom::Hierarchy &mh, const algebra::Vector3Ds points, Float max_dist)
void get_segmentation(em::DensityMap *dmap, double apix, double density_threshold, int num_means, const std::string pdb_filename, const std::string cmm_filename, const std::string seg_filename, const std::string txt_filename)
Segment a density map using the anchor graph.
void write_connolly_surface(atom::Atoms atoms, TextOutput fn, float density, float probe_radius)
Write the Connolly surface for a set of atoms to a file.
std::ostream & show(Hierarchy h, std::ostream &out=std::cout)
Print the hierarchy using a given decorator to display each node.
multifit::FittingSolutionRecords fft_based_rigid_fitting(atom::Hierarchy mol2fit, em::DensityMap *dmap, double density_threshold, double angle_sampling_interval_rad)
FFT fit of a molecule in the density.
Basic functionality that is expected to be used by a wide variety of IMP users.
General purpose algebraic and geometric methods that are expected to be used by a wide variety of IMP...
IntsList read_paths(const char *txt_filename, int max_paths=INT_MAX)
Read paths.
FittingSolutionRecords read_fitting_solutions(const char *fitting_fn)
Fitting solutions reader.
Abstract class to implement hierarchical methods.
Definition: Refiner.h:34
double get_resolution(Model *m, ParticleIndex pi)
Estimate the resolution of the hierarchy as used by Representation.
Output IMP model data in various file formats.
Functionality for loading, creating, manipulating and scoring atomic structures.
Support for the RMF file format for storing hierarchical molecular data and markup.
Divide-and-conquer inferential optimization in discrete space.
Support for small angle X-ray scattering (SAXS) data.
Inferential scoring building on methods developed as part of the Inferential Structure Determination ...
A restraint is a term in an IMP ScoringFunction.
Definition: Restraint.h:56
atom::Hierarchy create_coarse_molecule_from_density(em::DensityMap *dmap, float dens_threshold, int num_beads, Model *mdl, float bead_radius)
Coarsen a density map based on voxels clustering.