IMP  2.1.0
The Integrative Modeling Platform
multifit/__init__.py
1 # This file was automatically generated by SWIG (http://www.swig.org).
2 # Version 2.0.11
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 
9 
10 
11 from sys import version_info
12 if version_info >= (2,6,0):
13  def swig_import_helper():
14  from os.path import dirname
15  import imp
16  fp = None
17  try:
18  fp, pathname, description = imp.find_module('_IMP_multifit', [dirname(__file__)])
19  except ImportError:
20  import _IMP_multifit
21  return _IMP_multifit
22  if fp is not None:
23  try:
24  _mod = imp.load_module('_IMP_multifit', fp, pathname, description)
25  finally:
26  fp.close()
27  return _mod
28  _IMP_multifit = swig_import_helper()
29  del swig_import_helper
30 else:
31  import _IMP_multifit
32 del version_info
33 try:
34  _swig_property = property
35 except NameError:
36  pass # Python < 2.2 doesn't have 'property'.
37 def _swig_setattr_nondynamic(self,class_type,name,value,static=1):
38  if (name == "thisown"): return self.this.own(value)
39  if (name == "this"):
40  if type(value).__name__ == 'SwigPyObject':
41  self.__dict__[name] = value
42  return
43  method = class_type.__swig_setmethods__.get(name,None)
44  if method: return method(self,value)
45  if (not static):
46  self.__dict__[name] = value
47  else:
48  raise AttributeError("You cannot add attributes to %s" % self)
49 
50 def _swig_setattr(self,class_type,name,value):
51  return _swig_setattr_nondynamic(self,class_type,name,value,0)
52 
53 def _swig_getattr(self,class_type,name):
54  if (name == "thisown"): return self.this.own()
55  method = class_type.__swig_getmethods__.get(name,None)
56  if method: return method(self)
57  raise AttributeError(name)
58 
59 def _swig_repr(self):
60  try: strthis = "proxy of " + self.this.__repr__()
61  except: strthis = ""
62  return "<%s.%s; %s >" % (self.__class__.__module__, self.__class__.__name__, strthis,)
63 
64 try:
65  _object = object
66  _newclass = 1
67 except AttributeError:
68  class _object : pass
69  _newclass = 0
70 
71 
72 try:
73  import weakref
74  weakref_proxy = weakref.proxy
75 except:
76  weakref_proxy = lambda x: x
77 
78 
79 class IMP_MULTIFIT_SwigPyIterator(_object):
80  """Proxy of C++ swig::IMP_MULTIFIT_SwigPyIterator class"""
81  __swig_setmethods__ = {}
82  __setattr__ = lambda self, name, value: _swig_setattr(self, IMP_MULTIFIT_SwigPyIterator, name, value)
83  __swig_getmethods__ = {}
84  __getattr__ = lambda self, name: _swig_getattr(self, IMP_MULTIFIT_SwigPyIterator, name)
85  def __init__(self, *args, **kwargs): raise AttributeError("No constructor defined - class is abstract")
86  __repr__ = _swig_repr
87  __swig_destroy__ = _IMP_multifit.delete_IMP_MULTIFIT_SwigPyIterator
88  __del__ = lambda self : None;
89  def value(self):
90  """value(IMP_MULTIFIT_SwigPyIterator self) -> PyObject *"""
91  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_value(self)
92 
93  def incr(self, n=1):
94  """
95  incr(IMP_MULTIFIT_SwigPyIterator self, size_t n=1) -> IMP_MULTIFIT_SwigPyIterator
96  incr(IMP_MULTIFIT_SwigPyIterator self) -> IMP_MULTIFIT_SwigPyIterator
97  """
98  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_incr(self, n)
99 
100  def decr(self, n=1):
101  """
102  decr(IMP_MULTIFIT_SwigPyIterator self, size_t n=1) -> IMP_MULTIFIT_SwigPyIterator
103  decr(IMP_MULTIFIT_SwigPyIterator self) -> IMP_MULTIFIT_SwigPyIterator
104  """
105  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_decr(self, n)
106 
107  def distance(self, *args):
108  """distance(IMP_MULTIFIT_SwigPyIterator self, IMP_MULTIFIT_SwigPyIterator x) -> ptrdiff_t"""
109  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_distance(self, *args)
110 
111  def equal(self, *args):
112  """equal(IMP_MULTIFIT_SwigPyIterator self, IMP_MULTIFIT_SwigPyIterator x) -> bool"""
113  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_equal(self, *args)
114 
115  def copy(self):
116  """copy(IMP_MULTIFIT_SwigPyIterator self) -> IMP_MULTIFIT_SwigPyIterator"""
117  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_copy(self)
118 
119  def next(self):
120  """next(IMP_MULTIFIT_SwigPyIterator self) -> PyObject *"""
121  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_next(self)
122 
123  def __next__(self):
124  """__next__(IMP_MULTIFIT_SwigPyIterator self) -> PyObject *"""
125  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator___next__(self)
126 
127  def previous(self):
128  """previous(IMP_MULTIFIT_SwigPyIterator self) -> PyObject *"""
129  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_previous(self)
130 
131  def advance(self, *args):
132  """advance(IMP_MULTIFIT_SwigPyIterator self, ptrdiff_t n) -> IMP_MULTIFIT_SwigPyIterator"""
133  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_advance(self, *args)
134 
135  def __eq__(self, *args):
136  """__eq__(IMP_MULTIFIT_SwigPyIterator self, IMP_MULTIFIT_SwigPyIterator x) -> bool"""
137  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator___eq__(self, *args)
138 
139  def __ne__(self, *args):
140  """__ne__(IMP_MULTIFIT_SwigPyIterator self, IMP_MULTIFIT_SwigPyIterator x) -> bool"""
141  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator___ne__(self, *args)
142 
143  def __iadd__(self, *args):
144  """__iadd__(IMP_MULTIFIT_SwigPyIterator self, ptrdiff_t n) -> IMP_MULTIFIT_SwigPyIterator"""
145  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator___iadd__(self, *args)
146 
147  def __isub__(self, *args):
148  """__isub__(IMP_MULTIFIT_SwigPyIterator self, ptrdiff_t n) -> IMP_MULTIFIT_SwigPyIterator"""
149  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator___isub__(self, *args)
150 
151  def __add__(self, *args):
152  """__add__(IMP_MULTIFIT_SwigPyIterator self, ptrdiff_t n) -> IMP_MULTIFIT_SwigPyIterator"""
153  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator___add__(self, *args)
154 
155  def __sub__(self, *args):
156  """
157  __sub__(IMP_MULTIFIT_SwigPyIterator self, ptrdiff_t n) -> IMP_MULTIFIT_SwigPyIterator
158  __sub__(IMP_MULTIFIT_SwigPyIterator self, IMP_MULTIFIT_SwigPyIterator x) -> ptrdiff_t
159  """
160  return _IMP_multifit.IMP_MULTIFIT_SwigPyIterator___sub__(self, *args)
161 
162  def __iter__(self): return self
163 IMP_MULTIFIT_SwigPyIterator_swigregister = _IMP_multifit.IMP_MULTIFIT_SwigPyIterator_swigregister
164 IMP_MULTIFIT_SwigPyIterator_swigregister(IMP_MULTIFIT_SwigPyIterator)
165 
166 _value_types=[]
167 _object_types=[]
168 _raii_types=[]
169 _plural_types=[]
170 
171 IMP_DEBUG = _IMP_multifit.IMP_DEBUG
172 IMP_RELEASE = _IMP_multifit.IMP_RELEASE
173 IMP_SILENT = _IMP_multifit.IMP_SILENT
174 IMP_PROGRESS = _IMP_multifit.IMP_PROGRESS
175 IMP_TERSE = _IMP_multifit.IMP_TERSE
176 IMP_VERBOSE = _IMP_multifit.IMP_VERBOSE
177 IMP_MEMORY = _IMP_multifit.IMP_MEMORY
178 IMP_NONE = _IMP_multifit.IMP_NONE
179 IMP_USAGE = _IMP_multifit.IMP_USAGE
180 IMP_INTERNAL = _IMP_multifit.IMP_INTERNAL
181 IMP_BASE_HAS_LOG4CXX = _IMP_multifit.IMP_BASE_HAS_LOG4CXX
182 IMP_COMPILER_HAS_AUTO = _IMP_multifit.IMP_COMPILER_HAS_AUTO
183 IMP_COMPILER_HAS_DEBUG_VECTOR = _IMP_multifit.IMP_COMPILER_HAS_DEBUG_VECTOR
184 IMP_BASE_HAS_BOOST_RANDOM = _IMP_multifit.IMP_BASE_HAS_BOOST_RANDOM
185 IMP_BASE_HAS_GPERFTOOLS = _IMP_multifit.IMP_BASE_HAS_GPERFTOOLS
186 IMP_BASE_HAS_TCMALLOC_HEAPCHECKER = _IMP_multifit.IMP_BASE_HAS_TCMALLOC_HEAPCHECKER
187 IMP_BASE_HAS_TCMALLOC_HEAPPROFILER = _IMP_multifit.IMP_BASE_HAS_TCMALLOC_HEAPPROFILER
188 IMPBASE_SHOW_WARNINGS = _IMP_multifit.IMPBASE_SHOW_WARNINGS
189 import sys
190 class _DirectorObjects(object):
191  """@internal Simple class to keep references to director objects
192  to prevent premature deletion."""
193  def __init__(self):
194  self._objects = []
195  def register(self, obj):
196  """Take a reference to a director object; will only work for
197  refcounted C++ classes"""
198  if hasattr(obj, 'get_ref_count'):
199  self._objects.append(obj)
200  def cleanup(self):
201  """Only drop our reference and allow cleanup by Python if no other
202  Python references exist (we hold 3 references: one in self._objects,
203  one in x, and one in the argument list for getrefcount) *and* no
204  other C++ references exist (the Python object always holds one)"""
205  objs = [x for x in self._objects if sys.getrefcount(x) > 3 \
206  or x.get_ref_count() > 1]
207 
208 
209  self._objects = objs
210  def get_object_count(self):
211  """Get number of director objects (useful for testing only)"""
212  return len(self._objects)
213 _director_objects = _DirectorObjects()
214 
215 DEFAULT_CHECK = _IMP_multifit.DEFAULT_CHECK
216 NONE = _IMP_multifit.NONE
217 USAGE = _IMP_multifit.USAGE
218 USAGE_AND_INTERNAL = _IMP_multifit.USAGE_AND_INTERNAL
219 
220 def set_check_level(*args):
221  """set_check_level(IMP::base::CheckLevel tf)"""
222  return _IMP_multifit.set_check_level(*args)
223 
224 def get_check_level():
225  """get_check_level() -> IMP::base::CheckLevel"""
226  return _IMP_multifit.get_check_level()
227 class _ostream(_object):
228  """Proxy of C++ std::ostream class"""
229  __swig_setmethods__ = {}
230  __setattr__ = lambda self, name, value: _swig_setattr(self, _ostream, name, value)
231  __swig_getmethods__ = {}
232  __getattr__ = lambda self, name: _swig_getattr(self, _ostream, name)
233  def __init__(self, *args, **kwargs): raise AttributeError("No constructor defined")
234  __repr__ = _swig_repr
235  def write(self, *args):
236  """write(_ostream self, char const * osa_buf)"""
237  return _IMP_multifit._ostream_write(self, *args)
238 
239 _ostream_swigregister = _IMP_multifit._ostream_swigregister
240 _ostream_swigregister(_ostream)
241 
242 IMP_COMPILER_HAS_OVERRIDE = _IMP_multifit.IMP_COMPILER_HAS_OVERRIDE
243 IMP_COMPILER_HAS_FINAL = _IMP_multifit.IMP_COMPILER_HAS_FINAL
244 IMP_HAS_NOEXCEPT = _IMP_multifit.IMP_HAS_NOEXCEPT
245 import IMP.base
246 IMP_CGAL_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_CGAL_HAS_BOOST_FILESYSTEM
247 IMP_CGAL_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_CGAL_HAS_BOOST_PROGRAMOPTIONS
248 IMP_CGAL_HAS_BOOST_RANDOM = _IMP_multifit.IMP_CGAL_HAS_BOOST_RANDOM
249 IMP_CGAL_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_CGAL_HAS_BOOST_SYSTEM
250 IMPCGAL_SHOW_WARNINGS = _IMP_multifit.IMPCGAL_SHOW_WARNINGS
251 import IMP.cgal
252 IMP_ALGEBRA_HAS_IMP_CGAL = _IMP_multifit.IMP_ALGEBRA_HAS_IMP_CGAL
253 IMP_ALGEBRA_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_ALGEBRA_HAS_BOOST_FILESYSTEM
254 IMP_ALGEBRA_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_ALGEBRA_HAS_BOOST_PROGRAMOPTIONS
255 IMP_ALGEBRA_HAS_BOOST_RANDOM = _IMP_multifit.IMP_ALGEBRA_HAS_BOOST_RANDOM
256 IMP_ALGEBRA_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_ALGEBRA_HAS_BOOST_SYSTEM
257 IMP_ALGEBRA_HAS_CGAL = _IMP_multifit.IMP_ALGEBRA_HAS_CGAL
258 IMP_ALGEBRA_HAS_ANN = _IMP_multifit.IMP_ALGEBRA_HAS_ANN
259 IMPALGEBRA_SHOW_WARNINGS = _IMP_multifit.IMPALGEBRA_SHOW_WARNINGS
260 import IMP.algebra
261 IMP_KERNEL_HAS_IMP_CGAL = _IMP_multifit.IMP_KERNEL_HAS_IMP_CGAL
262 IMP_KERNEL_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_KERNEL_HAS_BOOST_PROGRAMOPTIONS
263 IMP_KERNEL_HAS_BOOST_RANDOM = _IMP_multifit.IMP_KERNEL_HAS_BOOST_RANDOM
264 IMP_KERNEL_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_KERNEL_HAS_BOOST_SYSTEM
265 IMP_KERNEL_HAS_CGAL = _IMP_multifit.IMP_KERNEL_HAS_CGAL
266 IMPKERNEL_SHOW_WARNINGS = _IMP_multifit.IMPKERNEL_SHOW_WARNINGS
267 import IMP.kernel
268 IMP_DISPLAY_HAS_IMP_BASE = _IMP_multifit.IMP_DISPLAY_HAS_IMP_BASE
269 IMP_DISPLAY_HAS_IMP_CGAL = _IMP_multifit.IMP_DISPLAY_HAS_IMP_CGAL
270 IMP_DISPLAY_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_DISPLAY_HAS_BOOST_FILESYSTEM
271 IMP_DISPLAY_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_DISPLAY_HAS_BOOST_PROGRAMOPTIONS
272 IMP_DISPLAY_HAS_BOOST_RANDOM = _IMP_multifit.IMP_DISPLAY_HAS_BOOST_RANDOM
273 IMP_DISPLAY_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_DISPLAY_HAS_BOOST_SYSTEM
274 IMP_DISPLAY_HAS_CGAL = _IMP_multifit.IMP_DISPLAY_HAS_CGAL
275 IMPDISPLAY_SHOW_WARNINGS = _IMP_multifit.IMPDISPLAY_SHOW_WARNINGS
276 import IMP.display
277 IMP_SCORE_FUNCTOR_HAS_IMP_CGAL = _IMP_multifit.IMP_SCORE_FUNCTOR_HAS_IMP_CGAL
278 IMP_SCORE_FUNCTOR_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_SCORE_FUNCTOR_HAS_BOOST_FILESYSTEM
279 IMP_SCORE_FUNCTOR_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_SCORE_FUNCTOR_HAS_BOOST_PROGRAMOPTIONS
280 IMP_SCORE_FUNCTOR_HAS_BOOST_RANDOM = _IMP_multifit.IMP_SCORE_FUNCTOR_HAS_BOOST_RANDOM
281 IMP_SCORE_FUNCTOR_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_SCORE_FUNCTOR_HAS_BOOST_SYSTEM
282 IMP_SCORE_FUNCTOR_HAS_CGAL = _IMP_multifit.IMP_SCORE_FUNCTOR_HAS_CGAL
283 IMPSCOREFUNCTOR_SHOW_WARNINGS = _IMP_multifit.IMPSCOREFUNCTOR_SHOW_WARNINGS
284 import IMP.score_functor
285 IMP_STATISTICS_HAS_IMP_BASE = _IMP_multifit.IMP_STATISTICS_HAS_IMP_BASE
286 IMP_STATISTICS_HAS_IMP_CGAL = _IMP_multifit.IMP_STATISTICS_HAS_IMP_CGAL
287 IMP_STATISTICS_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_STATISTICS_HAS_BOOST_FILESYSTEM
288 IMP_STATISTICS_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_STATISTICS_HAS_BOOST_PROGRAMOPTIONS
289 IMP_STATISTICS_HAS_BOOST_RANDOM = _IMP_multifit.IMP_STATISTICS_HAS_BOOST_RANDOM
290 IMP_STATISTICS_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_STATISTICS_HAS_BOOST_SYSTEM
291 IMP_STATISTICS_HAS_CGAL = _IMP_multifit.IMP_STATISTICS_HAS_CGAL
292 IMPSTATISTICS_SHOW_WARNINGS = _IMP_multifit.IMPSTATISTICS_SHOW_WARNINGS
293 import IMP.statistics
294 IMP_CORE_HAS_IMP_BASE = _IMP_multifit.IMP_CORE_HAS_IMP_BASE
295 IMP_CORE_HAS_IMP_CGAL = _IMP_multifit.IMP_CORE_HAS_IMP_CGAL
296 IMP_CORE_HAS_IMP_KERNEL = _IMP_multifit.IMP_CORE_HAS_IMP_KERNEL
297 IMP_CORE_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_CORE_HAS_BOOST_FILESYSTEM
298 IMP_CORE_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_CORE_HAS_BOOST_PROGRAMOPTIONS
299 IMP_CORE_HAS_BOOST_RANDOM = _IMP_multifit.IMP_CORE_HAS_BOOST_RANDOM
300 IMP_CORE_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_CORE_HAS_BOOST_SYSTEM
301 IMP_CORE_HAS_CGAL = _IMP_multifit.IMP_CORE_HAS_CGAL
302 IMPCORE_SHOW_WARNINGS = _IMP_multifit.IMPCORE_SHOW_WARNINGS
303 import IMP.core
304 IMP_CONTAINER_HAS_IMP_ALGEBRA = _IMP_multifit.IMP_CONTAINER_HAS_IMP_ALGEBRA
305 IMP_CONTAINER_HAS_IMP_BASE = _IMP_multifit.IMP_CONTAINER_HAS_IMP_BASE
306 IMP_CONTAINER_HAS_IMP_CGAL = _IMP_multifit.IMP_CONTAINER_HAS_IMP_CGAL
307 IMP_CONTAINER_HAS_IMP_DISPLAY = _IMP_multifit.IMP_CONTAINER_HAS_IMP_DISPLAY
308 IMP_CONTAINER_HAS_IMP_KERNEL = _IMP_multifit.IMP_CONTAINER_HAS_IMP_KERNEL
309 IMP_CONTAINER_HAS_IMP_SCORE_FUNCTOR = _IMP_multifit.IMP_CONTAINER_HAS_IMP_SCORE_FUNCTOR
310 IMP_CONTAINER_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_CONTAINER_HAS_BOOST_FILESYSTEM
311 IMP_CONTAINER_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_CONTAINER_HAS_BOOST_PROGRAMOPTIONS
312 IMP_CONTAINER_HAS_BOOST_RANDOM = _IMP_multifit.IMP_CONTAINER_HAS_BOOST_RANDOM
313 IMP_CONTAINER_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_CONTAINER_HAS_BOOST_SYSTEM
314 IMP_CONTAINER_HAS_CGAL = _IMP_multifit.IMP_CONTAINER_HAS_CGAL
315 IMPCONTAINER_SHOW_WARNINGS = _IMP_multifit.IMPCONTAINER_SHOW_WARNINGS
316 import IMP.container
317 IMP_ATOM_HAS_IMP_BASE = _IMP_multifit.IMP_ATOM_HAS_IMP_BASE
318 IMP_ATOM_HAS_IMP_CGAL = _IMP_multifit.IMP_ATOM_HAS_IMP_CGAL
319 IMP_ATOM_HAS_IMP_KERNEL = _IMP_multifit.IMP_ATOM_HAS_IMP_KERNEL
320 IMP_ATOM_HAS_IMP_SCORE_FUNCTOR = _IMP_multifit.IMP_ATOM_HAS_IMP_SCORE_FUNCTOR
321 IMP_ATOM_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_ATOM_HAS_BOOST_PROGRAMOPTIONS
322 IMP_ATOM_HAS_BOOST_RANDOM = _IMP_multifit.IMP_ATOM_HAS_BOOST_RANDOM
323 IMP_ATOM_HAS_BOOST_REGEX = _IMP_multifit.IMP_ATOM_HAS_BOOST_REGEX
324 IMP_ATOM_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_ATOM_HAS_BOOST_SYSTEM
325 IMP_ATOM_HAS_CGAL = _IMP_multifit.IMP_ATOM_HAS_CGAL
326 IMPATOM_SHOW_WARNINGS = _IMP_multifit.IMPATOM_SHOW_WARNINGS
327 IMP_ATOM_TYPE_INDEX = _IMP_multifit.IMP_ATOM_TYPE_INDEX
328 IMP_RESIDUE_TYPE_INDEX = _IMP_multifit.IMP_RESIDUE_TYPE_INDEX
329 IMP_HIERARCHY_TYPE_INDEX = _IMP_multifit.IMP_HIERARCHY_TYPE_INDEX
330 import IMP.atom
331 IMP_EM_HAS_IMP_CGAL = _IMP_multifit.IMP_EM_HAS_IMP_CGAL
332 IMP_EM_HAS_IMP_CONTAINER = _IMP_multifit.IMP_EM_HAS_IMP_CONTAINER
333 IMP_EM_HAS_IMP_DISPLAY = _IMP_multifit.IMP_EM_HAS_IMP_DISPLAY
334 IMP_EM_HAS_IMP_KERNEL = _IMP_multifit.IMP_EM_HAS_IMP_KERNEL
335 IMP_EM_HAS_IMP_SCORE_FUNCTOR = _IMP_multifit.IMP_EM_HAS_IMP_SCORE_FUNCTOR
336 IMP_EM_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_EM_HAS_BOOST_FILESYSTEM
337 IMP_EM_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_EM_HAS_BOOST_PROGRAMOPTIONS
338 IMP_EM_HAS_BOOST_RANDOM = _IMP_multifit.IMP_EM_HAS_BOOST_RANDOM
339 IMP_EM_HAS_BOOST_REGEX = _IMP_multifit.IMP_EM_HAS_BOOST_REGEX
340 IMP_EM_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_EM_HAS_BOOST_SYSTEM
341 IMP_EM_HAS_CGAL = _IMP_multifit.IMP_EM_HAS_CGAL
342 IMPEM_SHOW_WARNINGS = _IMP_multifit.IMPEM_SHOW_WARNINGS
343 import IMP.em
344 IMP_RMF_HAS_IMP_BASE = _IMP_multifit.IMP_RMF_HAS_IMP_BASE
345 IMP_RMF_HAS_IMP_CGAL = _IMP_multifit.IMP_RMF_HAS_IMP_CGAL
346 IMP_RMF_HAS_IMP_SCORE_FUNCTOR = _IMP_multifit.IMP_RMF_HAS_IMP_SCORE_FUNCTOR
347 IMP_RMF_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_RMF_HAS_BOOST_FILESYSTEM
348 IMP_RMF_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_RMF_HAS_BOOST_PROGRAMOPTIONS
349 IMP_RMF_HAS_BOOST_RANDOM = _IMP_multifit.IMP_RMF_HAS_BOOST_RANDOM
350 IMP_RMF_HAS_BOOST_REGEX = _IMP_multifit.IMP_RMF_HAS_BOOST_REGEX
351 IMP_RMF_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_RMF_HAS_BOOST_SYSTEM
352 IMP_RMF_HAS_CGAL = _IMP_multifit.IMP_RMF_HAS_CGAL
353 IMPRMF_SHOW_WARNINGS = _IMP_multifit.IMPRMF_SHOW_WARNINGS
354 import IMP.rmf
355 import RMF
356 IMP_DOMINO_HAS_IMP_ATOM = _IMP_multifit.IMP_DOMINO_HAS_IMP_ATOM
357 IMP_DOMINO_HAS_IMP_BASE = _IMP_multifit.IMP_DOMINO_HAS_IMP_BASE
358 IMP_DOMINO_HAS_IMP_CGAL = _IMP_multifit.IMP_DOMINO_HAS_IMP_CGAL
359 IMP_DOMINO_HAS_IMP_KERNEL = _IMP_multifit.IMP_DOMINO_HAS_IMP_KERNEL
360 IMP_DOMINO_HAS_IMP_RMF = _IMP_multifit.IMP_DOMINO_HAS_IMP_RMF
361 IMP_DOMINO_HAS_IMP_SCORE_FUNCTOR = _IMP_multifit.IMP_DOMINO_HAS_IMP_SCORE_FUNCTOR
362 IMP_DOMINO_HAS_BOOST_FILESYSTEM = _IMP_multifit.IMP_DOMINO_HAS_BOOST_FILESYSTEM
363 IMP_DOMINO_HAS_BOOST_PROGRAMOPTIONS = _IMP_multifit.IMP_DOMINO_HAS_BOOST_PROGRAMOPTIONS
364 IMP_DOMINO_HAS_BOOST_RANDOM = _IMP_multifit.IMP_DOMINO_HAS_BOOST_RANDOM
365 IMP_DOMINO_HAS_BOOST_REGEX = _IMP_multifit.IMP_DOMINO_HAS_BOOST_REGEX
366 IMP_DOMINO_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_DOMINO_HAS_BOOST_SYSTEM
367 IMP_DOMINO_HAS_CGAL = _IMP_multifit.IMP_DOMINO_HAS_CGAL
368 IMP_DOMINO_HAS_HDF5 = _IMP_multifit.IMP_DOMINO_HAS_HDF5
369 IMP_DOMINO_HAS_RMF = _IMP_multifit.IMP_DOMINO_HAS_RMF
370 IMPDOMINO_SHOW_WARNINGS = _IMP_multifit.IMPDOMINO_SHOW_WARNINGS
371 import RMF_HDF5
372 import IMP.domino
373 IMP_MULTIFIT_HAS_IMP_BASE = _IMP_multifit.IMP_MULTIFIT_HAS_IMP_BASE
374 IMP_MULTIFIT_HAS_IMP_CGAL = _IMP_multifit.IMP_MULTIFIT_HAS_IMP_CGAL
375 IMP_MULTIFIT_HAS_IMP_CONTAINER = _IMP_multifit.IMP_MULTIFIT_HAS_IMP_CONTAINER
376 IMP_MULTIFIT_HAS_IMP_DISPLAY = _IMP_multifit.IMP_MULTIFIT_HAS_IMP_DISPLAY
377 IMP_MULTIFIT_HAS_IMP_KERNEL = _IMP_multifit.IMP_MULTIFIT_HAS_IMP_KERNEL
378 IMP_MULTIFIT_HAS_IMP_RMF = _IMP_multifit.IMP_MULTIFIT_HAS_IMP_RMF
379 IMP_MULTIFIT_HAS_IMP_SCORE_FUNCTOR = _IMP_multifit.IMP_MULTIFIT_HAS_IMP_SCORE_FUNCTOR
380 IMP_MULTIFIT_HAS_BOOST_GRAPH = _IMP_multifit.IMP_MULTIFIT_HAS_BOOST_GRAPH
381 IMP_MULTIFIT_HAS_BOOST_RANDOM = _IMP_multifit.IMP_MULTIFIT_HAS_BOOST_RANDOM
382 IMP_MULTIFIT_HAS_BOOST_REGEX = _IMP_multifit.IMP_MULTIFIT_HAS_BOOST_REGEX
383 IMP_MULTIFIT_HAS_BOOST_SYSTEM = _IMP_multifit.IMP_MULTIFIT_HAS_BOOST_SYSTEM
384 IMP_MULTIFIT_HAS_CGAL = _IMP_multifit.IMP_MULTIFIT_HAS_CGAL
385 IMP_MULTIFIT_HAS_HDF5 = _IMP_multifit.IMP_MULTIFIT_HAS_HDF5
386 IMP_MULTIFIT_HAS_RMF = _IMP_multifit.IMP_MULTIFIT_HAS_RMF
387 IMPMULTIFIT_SHOW_WARNINGS = _IMP_multifit.IMPMULTIFIT_SHOW_WARNINGS
388 _object_types.append("RadiusOfGyrationRestraint")
389 
390 
391 def _object_cast_to_RadiusOfGyrationRestraint(*args):
392  """_object_cast_to_RadiusOfGyrationRestraint(Object o) -> RadiusOfGyrationRestraint"""
393  return _IMP_multifit._object_cast_to_RadiusOfGyrationRestraint(*args)
394 _object_types.append("ComponentHeader")
395 
396 
397 def _object_cast_to_ComponentHeader(*args):
398  """_object_cast_to_ComponentHeader(Object o) -> ComponentHeader"""
399  return _IMP_multifit._object_cast_to_ComponentHeader(*args)
400 _object_types.append("AssemblyHeader")
401 
402 
403 def _object_cast_to_AssemblyHeader(*args):
404  """_object_cast_to_AssemblyHeader(Object o) -> AssemblyHeader"""
405  return _IMP_multifit._object_cast_to_AssemblyHeader(*args)
406 _object_types.append("SettingsData")
407 
408 
409 def _object_cast_to_SettingsData(*args):
410  """_object_cast_to_SettingsData(Object o) -> SettingsData"""
411  return _IMP_multifit._object_cast_to_SettingsData(*args)
412 _object_types.append("WeightedExcludedVolumeRestraint")
413 
414 
415 def _object_cast_to_WeightedExcludedVolumeRestraint(*args):
416  """_object_cast_to_WeightedExcludedVolumeRestraint(Object o) -> WeightedExcludedVolumeRestraint"""
417  return _IMP_multifit._object_cast_to_WeightedExcludedVolumeRestraint(*args)
418 _object_types.append("ComplementarityRestraint")
419 
420 
421 def _object_cast_to_ComplementarityRestraint(*args):
422  """_object_cast_to_ComplementarityRestraint(Object o) -> ComplementarityRestraint"""
423  return _IMP_multifit._object_cast_to_ComplementarityRestraint(*args)
424 ProteinRecordDataList=list
425 _plural_types.append("ProteinRecordDataList")
426 _value_types.append("ProteinRecordData")
427 
428 FittingSolutionRecords=list
429 _plural_types.append("FittingSolutionRecords")
430 _value_types.append("FittingSolutionRecord")
431 
432 AnchorsDataList=list
433 _plural_types.append("AnchorsDataList")
434 _value_types.append("AnchorsData")
435 
436 DominoParamsList=list
437 _plural_types.append("DominoParamsList")
438 _value_types.append("DominoParams")
439 
440 ComplementarityParamsList=list
441 _plural_types.append("ComplementarityParamsList")
442 _value_types.append("ComplementarityParams")
443 
444 XlinkParamsList=list
445 _plural_types.append("XlinkParamsList")
446 _value_types.append("XlinkParams")
447 
448 ConnectivityParamsList=list
449 _plural_types.append("ConnectivityParamsList")
450 _value_types.append("ConnectivityParams")
451 
452 FragmentsParamsList=list
453 _plural_types.append("FragmentsParamsList")
454 _value_types.append("FragmentsParams")
455 
456 RogParamsList=list
457 _plural_types.append("RogParamsList")
458 _value_types.append("RogParams")
459 
460 EVParamsList=list
461 _plural_types.append("EVParamsList")
462 _value_types.append("EVParams")
463 
464 FiltersParamsList=list
465 _plural_types.append("FiltersParamsList")
466 _value_types.append("FiltersParams")
467 
468 AlignmentParamsList=list
469 _plural_types.append("AlignmentParamsList")
470 _value_types.append("AlignmentParams")
471 
472 FittingParamsList=list
473 _plural_types.append("FittingParamsList")
474 _value_types.append("FittingParams")
475 
476 ProteinsAnchorsSamplingSpaces=list
477 _plural_types.append("ProteinsAnchorsSamplingSpaces")
478 _value_types.append("ProteinsAnchorsSamplingSpace")
479 
480 _object_types.append("ProteomicsData")
481 
482 
483 def _object_cast_to_ProteomicsData(*args):
484  """_object_cast_to_ProteomicsData(Object o) -> ProteomicsData"""
485  return _IMP_multifit._object_cast_to_ProteomicsData(*args)
486 _object_types.append("FFTFitting")
487 
488 
489 def _object_cast_to_FFTFitting(*args):
490  """_object_cast_to_FFTFitting(Object o) -> FFTFitting"""
491  return _IMP_multifit._object_cast_to_FFTFitting(*args)
492 _object_types.append("FFTFittingOutput")
493 
494 
495 def _object_cast_to_FFTFittingOutput(*args):
496  """_object_cast_to_FFTFittingOutput(Object o) -> FFTFittingOutput"""
497  return _IMP_multifit._object_cast_to_FFTFittingOutput(*args)
498 _object_types.append("ProbabilisticAnchorGraph")
499 
500 
501 def _object_cast_to_ProbabilisticAnchorGraph(*args):
502  """_object_cast_to_ProbabilisticAnchorGraph(Object o) -> ProbabilisticAnchorGraph"""
503  return _IMP_multifit._object_cast_to_ProbabilisticAnchorGraph(*args)
504 _object_types.append("Ensemble")
505 
506 
507 def _object_cast_to_Ensemble(*args):
508  """_object_cast_to_Ensemble(Object o) -> Ensemble"""
509  return _IMP_multifit._object_cast_to_Ensemble(*args)
510 _object_types.append("ProteomicsEMAlignmentAtomic")
511 
512 
513 def _object_cast_to_ProteomicsEMAlignmentAtomic(*args):
514  """_object_cast_to_ProteomicsEMAlignmentAtomic(Object o) -> ProteomicsEMAlignmentAtomic"""
515  return _IMP_multifit._object_cast_to_ProteomicsEMAlignmentAtomic(*args)
516 
517 def add_surface_index(*args):
518  """
519  add_surface_index(Hierarchy mhd, IMP::Float apix, FloatKey shell_key=FloatKey("surf_ind"), FloatKey radius_key=IMP::core::XYZR::get_radius_key(),
520  FloatKey weight_key=IMP::atom::Mass::get_mass_key())
521  add_surface_index(Hierarchy mhd, IMP::Float apix, FloatKey shell_key=FloatKey("surf_ind"), FloatKey radius_key=IMP::core::XYZR::get_radius_key())
522  add_surface_index(Hierarchy mhd, IMP::Float apix, FloatKey shell_key=FloatKey("surf_ind"))
523  add_surface_index(Hierarchy mhd, IMP::Float apix)
524  """
525  return _IMP_multifit.add_surface_index(*args)
526 
528  """
529  create_weighted_excluded_volume_restraint(RigidBody rb1, RigidBody rb2, FloatKey shell_key=FloatKey("surf_ind")) -> Restraint
530  create_weighted_excluded_volume_restraint(RigidBody rb1, RigidBody rb2) -> Restraint
531  """
532  return _IMP_multifit.create_weighted_excluded_volume_restraint(*args)
533 class FittingSolutionRecord(_object):
534  """Proxy of C++ IMP::multifit::FittingSolutionRecord class"""
535  __swig_setmethods__ = {}
536  __setattr__ = lambda self, name, value: _swig_setattr(self, FittingSolutionRecord, name, value)
537  __swig_getmethods__ = {}
538  __getattr__ = lambda self, name: _swig_getattr(self, FittingSolutionRecord, name)
539  def __init__(self):
540  """__init__(IMP::multifit::FittingSolutionRecord self) -> FittingSolutionRecord"""
541  this = _IMP_multifit.new_FittingSolutionRecord()
542  try: self.this.append(this)
543  except: self.this = this
544  def get_index(self):
545  """get_index(FittingSolutionRecord self) -> unsigned int"""
546  return _IMP_multifit.FittingSolutionRecord_get_index(self)
547 
548  def set_index(self, *args):
549  """set_index(FittingSolutionRecord self, unsigned int new_ind)"""
550  return _IMP_multifit.FittingSolutionRecord_set_index(self, *args)
551 
552  def get_solution_filename(self):
553  """get_solution_filename(FittingSolutionRecord self) -> std::string"""
554  return _IMP_multifit.FittingSolutionRecord_get_solution_filename(self)
555 
556  def set_solution_filename(self, *args):
557  """set_solution_filename(FittingSolutionRecord self, std::string sol_fn)"""
558  return _IMP_multifit.FittingSolutionRecord_set_solution_filename(self, *args)
559 
560  def get_fit_transformation(self):
561  """get_fit_transformation(FittingSolutionRecord self) -> Transformation3D"""
562  return _IMP_multifit.FittingSolutionRecord_get_fit_transformation(self)
563 
564  def set_fit_transformation(self, *args):
565  """set_fit_transformation(FittingSolutionRecord self, Transformation3D t)"""
566  return _IMP_multifit.FittingSolutionRecord_set_fit_transformation(self, *args)
567 
568  def get_match_size(self):
569  """get_match_size(FittingSolutionRecord self) -> unsigned int"""
570  return _IMP_multifit.FittingSolutionRecord_get_match_size(self)
571 
572  def set_match_size(self, *args):
573  """set_match_size(FittingSolutionRecord self, unsigned int match_size)"""
574  return _IMP_multifit.FittingSolutionRecord_set_match_size(self, *args)
575 
576  def get_match_average_distance(self):
577  """get_match_average_distance(FittingSolutionRecord self) -> IMP::Float"""
578  return _IMP_multifit.FittingSolutionRecord_get_match_average_distance(self)
579 
580  def set_match_average_distance(self, *args):
581  """set_match_average_distance(FittingSolutionRecord self, IMP::Float match_avg_dist)"""
582  return _IMP_multifit.FittingSolutionRecord_set_match_average_distance(self, *args)
583 
584  def get_fitting_score(self):
585  """get_fitting_score(FittingSolutionRecord self) -> IMP::Float"""
586  return _IMP_multifit.FittingSolutionRecord_get_fitting_score(self)
587 
588  def set_fitting_score(self, *args):
589  """set_fitting_score(FittingSolutionRecord self, IMP::Float fit_score)"""
590  return _IMP_multifit.FittingSolutionRecord_set_fitting_score(self, *args)
591 
592  def get_rmsd_to_reference(self):
593  """get_rmsd_to_reference(FittingSolutionRecord self) -> IMP::Float"""
594  return _IMP_multifit.FittingSolutionRecord_get_rmsd_to_reference(self)
595 
596  def set_rmsd_to_reference(self, *args):
597  """set_rmsd_to_reference(FittingSolutionRecord self, IMP::Float rmsd_to_ref)"""
598  return _IMP_multifit.FittingSolutionRecord_set_rmsd_to_reference(self, *args)
599 
600  def get_dock_transformation(self):
601  """get_dock_transformation(FittingSolutionRecord self) -> Transformation3D"""
602  return _IMP_multifit.FittingSolutionRecord_get_dock_transformation(self)
603 
604  def set_dock_transformation(self, *args):
605  """set_dock_transformation(FittingSolutionRecord self, Transformation3D t)"""
606  return _IMP_multifit.FittingSolutionRecord_set_dock_transformation(self, *args)
607 
608  def get_envelope_penetration_score(self):
609  """get_envelope_penetration_score(FittingSolutionRecord self) -> IMP::Float"""
610  return _IMP_multifit.FittingSolutionRecord_get_envelope_penetration_score(self)
611 
612  def set_envelope_penetration_score(self, *args):
613  """set_envelope_penetration_score(FittingSolutionRecord self, IMP::Float s)"""
614  return _IMP_multifit.FittingSolutionRecord_set_envelope_penetration_score(self, *args)
615 
616  def show(self, *args):
617  """
618  show(FittingSolutionRecord self, _ostream out=std::cout)
619  show(FittingSolutionRecord self)
620  """
621  return _IMP_multifit.FittingSolutionRecord_show(self, *args)
622 
623  def get_record_header():
624  """get_record_header() -> std::string"""
625  return _IMP_multifit.FittingSolutionRecord_get_record_header()
626 
627  if _newclass:get_record_header = staticmethod(get_record_header)
628  __swig_getmethods__["get_record_header"] = lambda x: get_record_header
629  def __str__(self):
630  """__str__(FittingSolutionRecord self) -> std::string"""
631  return _IMP_multifit.FittingSolutionRecord___str__(self)
632 
633  def __repr__(self):
634  """__repr__(FittingSolutionRecord self) -> std::string"""
635  return _IMP_multifit.FittingSolutionRecord___repr__(self)
636 
637  __swig_destroy__ = _IMP_multifit.delete_FittingSolutionRecord
638  __del__ = lambda self : None;
639 FittingSolutionRecord_swigregister = _IMP_multifit.FittingSolutionRecord_swigregister
640 FittingSolutionRecord_swigregister(FittingSolutionRecord)
641 
642 def FittingSolutionRecord_get_record_header():
643  """FittingSolutionRecord_get_record_header() -> std::string"""
644  return _IMP_multifit.FittingSolutionRecord_get_record_header()
645 
646 
647 def pca_based_rigid_fitting(*args):
648  """
649  pca_based_rigid_fitting(RigidBody rb, Refiner rb_refiner, DensityMap em_map, IMP::Float threshold, FloatKey wei_key=IMP::atom::Mass::get_mass_key(),
650  PrincipalComponentAnalysis3D dens_pca_input=IMP::algebra::PrincipalComponentAnalysis()) -> FittingSolutions
651  pca_based_rigid_fitting(RigidBody rb, Refiner rb_refiner, DensityMap em_map, IMP::Float threshold, FloatKey wei_key=IMP::atom::Mass::get_mass_key()) -> FittingSolutions
652  pca_based_rigid_fitting(RigidBody rb, Refiner rb_refiner, DensityMap em_map, IMP::Float threshold) -> FittingSolutions
653  pca_based_rigid_fitting(IMP::kernel::ParticlesTemp ps, DensityMap em_map, IMP::Float threshold, FloatKey wei_key=IMP::atom::Mass::get_mass_key(),
654  PrincipalComponentAnalysis3D dens_pca_input=IMP::algebra::PrincipalComponentAnalysis()) -> FittingSolutions
655  pca_based_rigid_fitting(IMP::kernel::ParticlesTemp ps, DensityMap em_map, IMP::Float threshold, FloatKey wei_key=IMP::atom::Mass::get_mass_key()) -> FittingSolutions
656  pca_based_rigid_fitting(IMP::kernel::ParticlesTemp ps, DensityMap em_map, IMP::Float threshold) -> FittingSolutions
657  """
658  return _IMP_multifit.pca_based_rigid_fitting(*args)
659 
660 def write_markers(*args):
661  """write_markers(PrincipalComponentAnalysis3D pca, _ostream out)"""
662  return _IMP_multifit.write_markers(*args)
663 class ComponentHeader(IMP.base.Object):
664  """Proxy of C++ IMP::multifit::ComponentHeader class"""
665  __swig_setmethods__ = {}
666  for _s in [IMP.base.Object]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
667  __setattr__ = lambda self, name, value: _swig_setattr(self, ComponentHeader, name, value)
668  __swig_getmethods__ = {}
669  for _s in [IMP.base.Object]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
670  __getattr__ = lambda self, name: _swig_getattr(self, ComponentHeader, name)
671  def __init__(self):
672  """__init__(IMP::multifit::ComponentHeader self) -> ComponentHeader"""
673  this = _IMP_multifit.new_ComponentHeader()
674  try: self.this.append(this)
675  except: self.this = this
676  def set_name(self, *args):
677  """set_name(ComponentHeader self, std::string const & name)"""
678  return _IMP_multifit.ComponentHeader_set_name(self, *args)
679 
680  def get_name(self):
681  """get_name(ComponentHeader self) -> std::string"""
682  return _IMP_multifit.ComponentHeader_get_name(self)
683 
684  def get_filename(self):
685  """get_filename(ComponentHeader self) -> std::string"""
686  return _IMP_multifit.ComponentHeader_get_filename(self)
687 
688  def set_filename(self, *args):
689  """set_filename(ComponentHeader self, std::string const & filename)"""
690  return _IMP_multifit.ComponentHeader_set_filename(self, *args)
691 
692  def get_surface_fn(self):
693  """get_surface_fn(ComponentHeader self) -> std::string"""
694  return _IMP_multifit.ComponentHeader_get_surface_fn(self)
695 
696  def set_surface_fn(self, *args):
697  """set_surface_fn(ComponentHeader self, std::string const & fn)"""
698  return _IMP_multifit.ComponentHeader_set_surface_fn(self, *args)
699 
700  def set_txt_ap_fn(self, *args):
701  """set_txt_ap_fn(ComponentHeader self, std::string const & pdb_ap_fn)"""
702  return _IMP_multifit.ComponentHeader_set_txt_ap_fn(self, *args)
703 
704  def get_txt_ap_fn(self):
705  """get_txt_ap_fn(ComponentHeader self) -> std::string"""
706  return _IMP_multifit.ComponentHeader_get_txt_ap_fn(self)
707 
708  def set_txt_fine_ap_fn(self, *args):
709  """set_txt_fine_ap_fn(ComponentHeader self, std::string const & pdb_ap_fn)"""
710  return _IMP_multifit.ComponentHeader_set_txt_fine_ap_fn(self, *args)
711 
712  def get_txt_fine_ap_fn(self):
713  """get_txt_fine_ap_fn(ComponentHeader self) -> std::string"""
714  return _IMP_multifit.ComponentHeader_get_txt_fine_ap_fn(self)
715 
716  def set_num_ap(self, *args):
717  """set_num_ap(ComponentHeader self, int num_ap)"""
718  return _IMP_multifit.ComponentHeader_set_num_ap(self, *args)
719 
720  def get_num_ap(self):
721  """get_num_ap(ComponentHeader self) -> int"""
722  return _IMP_multifit.ComponentHeader_get_num_ap(self)
723 
724  def set_num_fine_ap(self, *args):
725  """set_num_fine_ap(ComponentHeader self, int num_ap)"""
726  return _IMP_multifit.ComponentHeader_set_num_fine_ap(self, *args)
727 
728  def get_num_fine_ap(self):
729  """get_num_fine_ap(ComponentHeader self) -> int"""
730  return _IMP_multifit.ComponentHeader_get_num_fine_ap(self)
731 
732  def set_transformations_fn(self, *args):
733  """set_transformations_fn(ComponentHeader self, std::string transformations_fn)"""
734  return _IMP_multifit.ComponentHeader_set_transformations_fn(self, *args)
735 
736  def get_transformations_fn(self):
737  """get_transformations_fn(ComponentHeader self) -> std::string"""
738  return _IMP_multifit.ComponentHeader_get_transformations_fn(self)
739 
740  def set_reference_fn(self, *args):
741  """set_reference_fn(ComponentHeader self, std::string const & ref_fn)"""
742  return _IMP_multifit.ComponentHeader_set_reference_fn(self, *args)
743 
744  def get_reference_fn(self):
745  """get_reference_fn(ComponentHeader self) -> std::string"""
746  return _IMP_multifit.ComponentHeader_get_reference_fn(self)
747 
748  def get_version_info(self):
749  """get_version_info(ComponentHeader self) -> VersionInfo"""
750  return _IMP_multifit.ComponentHeader_get_version_info(self)
751 
752  __swig_destroy__ = _IMP_multifit.delete_ComponentHeader
753  __del__ = lambda self : None;
754  def __str__(self):
755  """__str__(ComponentHeader self) -> std::string"""
756  return _IMP_multifit.ComponentHeader___str__(self)
757 
758  def __repr__(self):
759  """__repr__(ComponentHeader self) -> std::string"""
760  return _IMP_multifit.ComponentHeader___repr__(self)
761 
762  def get_from(o):
763  return _object_cast_to_ComponentHeader(o)
764  get_from = staticmethod(get_from)
765 
766 ComponentHeader_swigregister = _IMP_multifit.ComponentHeader_swigregister
767 ComponentHeader_swigregister(ComponentHeader)
768 
769 class AssemblyHeader(IMP.base.Object):
770  """Proxy of C++ IMP::multifit::AssemblyHeader class"""
771  __swig_setmethods__ = {}
772  for _s in [IMP.base.Object]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
773  __setattr__ = lambda self, name, value: _swig_setattr(self, AssemblyHeader, name, value)
774  __swig_getmethods__ = {}
775  for _s in [IMP.base.Object]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
776  __getattr__ = lambda self, name: _swig_getattr(self, AssemblyHeader, name)
777  def __init__(self):
778  """__init__(IMP::multifit::AssemblyHeader self) -> AssemblyHeader"""
779  this = _IMP_multifit.new_AssemblyHeader()
780  try: self.this.append(this)
781  except: self.this = this
782  def set_dens_fn(self, *args):
783  """set_dens_fn(AssemblyHeader self, std::string const & dens_fn)"""
784  return _IMP_multifit.AssemblyHeader_set_dens_fn(self, *args)
785 
786  def get_dens_fn(self):
787  """get_dens_fn(AssemblyHeader self) -> std::string"""
788  return _IMP_multifit.AssemblyHeader_get_dens_fn(self)
789 
790  def set_resolution(self, *args):
791  """set_resolution(AssemblyHeader self, float res)"""
792  return _IMP_multifit.AssemblyHeader_set_resolution(self, *args)
793 
794  def get_resolution(self):
795  """get_resolution(AssemblyHeader self) -> float"""
796  return _IMP_multifit.AssemblyHeader_get_resolution(self)
797 
798  def get_spacing(self):
799  """get_spacing(AssemblyHeader self) -> float"""
800  return _IMP_multifit.AssemblyHeader_get_spacing(self)
801 
802  def set_spacing(self, *args):
803  """set_spacing(AssemblyHeader self, float spacing)"""
804  return _IMP_multifit.AssemblyHeader_set_spacing(self, *args)
805 
806  def set_threshold(self, *args):
807  """set_threshold(AssemblyHeader self, float t)"""
808  return _IMP_multifit.AssemblyHeader_set_threshold(self, *args)
809 
810  def get_threshold(self):
811  """get_threshold(AssemblyHeader self) -> float"""
812  return _IMP_multifit.AssemblyHeader_get_threshold(self)
813 
814  def get_origin(self):
815  """get_origin(AssemblyHeader self) -> Vector3D"""
816  return _IMP_multifit.AssemblyHeader_get_origin(self)
817 
818  def set_origin(self, *args):
819  """set_origin(AssemblyHeader self, Vector3D origin)"""
820  return _IMP_multifit.AssemblyHeader_set_origin(self, *args)
821 
822  def get_coarse_ap_fn(self):
823  """get_coarse_ap_fn(AssemblyHeader self) -> std::string"""
824  return _IMP_multifit.AssemblyHeader_get_coarse_ap_fn(self)
825 
826  def set_coarse_ap_fn(self, *args):
827  """set_coarse_ap_fn(AssemblyHeader self, std::string const & new_fn)"""
828  return _IMP_multifit.AssemblyHeader_set_coarse_ap_fn(self, *args)
829 
830  def get_coarse_over_sampled_ap_fn(self):
831  """get_coarse_over_sampled_ap_fn(AssemblyHeader self) -> std::string"""
832  return _IMP_multifit.AssemblyHeader_get_coarse_over_sampled_ap_fn(self)
833 
834  def set_coarse_over_sampled_ap_fn(self, *args):
835  """set_coarse_over_sampled_ap_fn(AssemblyHeader self, std::string const & new_fn)"""
836  return _IMP_multifit.AssemblyHeader_set_coarse_over_sampled_ap_fn(self, *args)
837 
838  def get_fine_ap_fn(self):
839  """get_fine_ap_fn(AssemblyHeader self) -> std::string"""
840  return _IMP_multifit.AssemblyHeader_get_fine_ap_fn(self)
841 
842  def set_fine_ap_fn(self, *args):
843  """set_fine_ap_fn(AssemblyHeader self, std::string const & new_fn)"""
844  return _IMP_multifit.AssemblyHeader_set_fine_ap_fn(self, *args)
845 
846  def get_fine_over_sampled_ap_fn(self):
847  """get_fine_over_sampled_ap_fn(AssemblyHeader self) -> std::string"""
848  return _IMP_multifit.AssemblyHeader_get_fine_over_sampled_ap_fn(self)
849 
850  def set_fine_over_sampled_ap_fn(self, *args):
851  """set_fine_over_sampled_ap_fn(AssemblyHeader self, std::string const & new_fn)"""
852  return _IMP_multifit.AssemblyHeader_set_fine_over_sampled_ap_fn(self, *args)
853 
854  def get_version_info(self):
855  """get_version_info(AssemblyHeader self) -> VersionInfo"""
856  return _IMP_multifit.AssemblyHeader_get_version_info(self)
857 
858  __swig_destroy__ = _IMP_multifit.delete_AssemblyHeader
859  __del__ = lambda self : None;
860  def __str__(self):
861  """__str__(AssemblyHeader self) -> std::string"""
862  return _IMP_multifit.AssemblyHeader___str__(self)
863 
864  def __repr__(self):
865  """__repr__(AssemblyHeader self) -> std::string"""
866  return _IMP_multifit.AssemblyHeader___repr__(self)
867 
868  def get_from(o):
869  return _object_cast_to_AssemblyHeader(o)
870  get_from = staticmethod(get_from)
871 
872 AssemblyHeader_swigregister = _IMP_multifit.AssemblyHeader_swigregister
873 AssemblyHeader_swigregister(AssemblyHeader)
874 
875 class SettingsData(IMP.base.Object):
876  """Proxy of C++ IMP::multifit::SettingsData class"""
877  __swig_setmethods__ = {}
878  for _s in [IMP.base.Object]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
879  __setattr__ = lambda self, name, value: _swig_setattr(self, SettingsData, name, value)
880  __swig_getmethods__ = {}
881  for _s in [IMP.base.Object]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
882  __getattr__ = lambda self, name: _swig_getattr(self, SettingsData, name)
883  def __init__(self):
884  """__init__(IMP::multifit::SettingsData self) -> SettingsData"""
885  this = _IMP_multifit.new_SettingsData()
886  try: self.this.append(this)
887  except: self.this = this
888  def show_component_header_line(*args):
889  """
890  show_component_header_line(_ostream out=std::cout)
891  show_component_header_line()
892  """
893  return _IMP_multifit.SettingsData_show_component_header_line(*args)
894 
895  if _newclass:show_component_header_line = staticmethod(show_component_header_line)
896  __swig_getmethods__["show_component_header_line"] = lambda x: show_component_header_line
897  def get_component_header_line():
898  """get_component_header_line() -> std::string"""
899  return _IMP_multifit.SettingsData_get_component_header_line()
900 
901  if _newclass:get_component_header_line = staticmethod(get_component_header_line)
902  __swig_getmethods__["get_component_header_line"] = lambda x: get_component_header_line
903  def show_density_header_line(*args):
904  """
905  show_density_header_line(_ostream out=std::cout)
906  show_density_header_line()
907  """
908  return _IMP_multifit.SettingsData_show_density_header_line(*args)
909 
910  if _newclass:show_density_header_line = staticmethod(show_density_header_line)
911  __swig_getmethods__["show_density_header_line"] = lambda x: show_density_header_line
912  def get_density_header_line():
913  """get_density_header_line() -> std::string"""
914  return _IMP_multifit.SettingsData_get_density_header_line()
915 
916  if _newclass:get_density_header_line = staticmethod(get_density_header_line)
917  __swig_getmethods__["get_density_header_line"] = lambda x: get_density_header_line
918  def set_assembly_filename(self, *args):
919  """set_assembly_filename(SettingsData self, std::string const & fn)"""
920  return _IMP_multifit.SettingsData_set_assembly_filename(self, *args)
921 
922  def get_assembly_filename(self):
923  """get_assembly_filename(SettingsData self) -> char const *"""
924  return _IMP_multifit.SettingsData_get_assembly_filename(self)
925 
926  def set_assembly_header(self, *args):
927  """set_assembly_header(SettingsData self, AssemblyHeader h)"""
928  return _IMP_multifit.SettingsData_set_assembly_header(self, *args)
929 
930  def get_assembly_header(self):
931  """get_assembly_header(SettingsData self) -> AssemblyHeader"""
932  return _IMP_multifit.SettingsData_get_assembly_header(self)
933 
934  def set_data_path(self, *args):
935  """set_data_path(SettingsData self, std::string const & fn)"""
936  return _IMP_multifit.SettingsData_set_data_path(self, *args)
937 
938  def get_data_path(self):
939  """get_data_path(SettingsData self) -> std::string"""
940  return _IMP_multifit.SettingsData_get_data_path(self)
941 
942  def get_version_info(self):
943  """get_version_info(SettingsData self) -> VersionInfo"""
944  return _IMP_multifit.SettingsData_get_version_info(self)
945 
946  __swig_destroy__ = _IMP_multifit.delete_SettingsData
947  __del__ = lambda self : None;
948  def remove_component_header(self, *args):
949  """remove_component_header(SettingsData self, ComponentHeader d)"""
950  return _IMP_multifit.SettingsData_remove_component_header(self, *args)
951 
952  def remove_component_headers(self, *args):
953  """remove_component_headers(SettingsData self, IMP::multifit::ComponentHeaders const & d)"""
954  return _IMP_multifit.SettingsData_remove_component_headers(self, *args)
955 
956  def set_component_headers(self, *args):
957  """set_component_headers(SettingsData self, IMP::multifit::ComponentHeaders const & ps)"""
958  return _IMP_multifit.SettingsData_set_component_headers(self, *args)
959 
960  def set_component_headers_order(self, *args):
961  """set_component_headers_order(SettingsData self, IMP::multifit::ComponentHeaders const & objs)"""
962  return _IMP_multifit.SettingsData_set_component_headers_order(self, *args)
963 
964  def add_component_header(self, *args):
965  """add_component_header(SettingsData self, ComponentHeader obj) -> unsigned int"""
966  return _IMP_multifit.SettingsData_add_component_header(self, *args)
967 
968  def add_component_headers(self, *args):
969  """add_component_headers(SettingsData self, IMP::multifit::ComponentHeaders const & objs)"""
970  return _IMP_multifit.SettingsData_add_component_headers(self, *args)
971 
972  def clear_component_headers(self):
973  """clear_component_headers(SettingsData self)"""
974  return _IMP_multifit.SettingsData_clear_component_headers(self)
975 
976  def get_number_of_component_headers(self):
977  """get_number_of_component_headers(SettingsData self) -> unsigned int"""
978  return _IMP_multifit.SettingsData_get_number_of_component_headers(self)
979 
980  def get_has_component_headers(self):
981  """get_has_component_headers(SettingsData self) -> bool"""
982  return _IMP_multifit.SettingsData_get_has_component_headers(self)
983 
984  def get_component_header(self, *args):
985  """get_component_header(SettingsData self, unsigned int i) -> ComponentHeader"""
986  return _IMP_multifit.SettingsData_get_component_header(self, *args)
987 
988  def get_component_headers(self):
989  """get_component_headers(SettingsData self) -> IMP::multifit::ComponentHeaders"""
990  return _IMP_multifit.SettingsData_get_component_headers(self)
991 
992  def reserve_component_headers(self, *args):
993  """reserve_component_headers(SettingsData self, unsigned int sz)"""
994  return _IMP_multifit.SettingsData_reserve_component_headers(self, *args)
995 
996  def __str__(self):
997  """__str__(SettingsData self) -> std::string"""
998  return _IMP_multifit.SettingsData___str__(self)
999 
1000  def __repr__(self):
1001  """__repr__(SettingsData self) -> std::string"""
1002  return _IMP_multifit.SettingsData___repr__(self)
1003 
1004  def get_from(o):
1005  return _object_cast_to_SettingsData(o)
1006  get_from = staticmethod(get_from)
1007 
1008 SettingsData_swigregister = _IMP_multifit.SettingsData_swigregister
1009 SettingsData_swigregister(SettingsData)
1010 
1011 def SettingsData_show_component_header_line(*args):
1012  """
1013  show_component_header_line(_ostream out=std::cout)
1014  SettingsData_show_component_header_line()
1015  """
1016  return _IMP_multifit.SettingsData_show_component_header_line(*args)
1017 
1018 def SettingsData_get_component_header_line():
1019  """SettingsData_get_component_header_line() -> std::string"""
1020  return _IMP_multifit.SettingsData_get_component_header_line()
1021 
1022 def SettingsData_show_density_header_line(*args):
1023  """
1024  show_density_header_line(_ostream out=std::cout)
1025  SettingsData_show_density_header_line()
1026  """
1027  return _IMP_multifit.SettingsData_show_density_header_line(*args)
1028 
1029 def SettingsData_get_density_header_line():
1030  """SettingsData_get_density_header_line() -> std::string"""
1031  return _IMP_multifit.SettingsData_get_density_header_line()
1032 
1033 
1034 def read_settings(*args):
1035  """read_settings(char const * filename) -> SettingsData"""
1036  return _IMP_multifit.read_settings(*args)
1037 
1038 def write_settings(*args):
1039  """write_settings(char const * filename, SettingsData sd)"""
1040  return _IMP_multifit.write_settings(*args)
1041 class WeightedExcludedVolumeRestraint(IMP.kernel.Restraint):
1042  """Proxy of C++ IMP::multifit::WeightedExcludedVolumeRestraint class"""
1043  __swig_setmethods__ = {}
1044  for _s in [IMP.kernel.Restraint]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
1045  __setattr__ = lambda self, name, value: _swig_setattr(self, WeightedExcludedVolumeRestraint, name, value)
1046  __swig_getmethods__ = {}
1047  for _s in [IMP.kernel.Restraint]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
1048  __getattr__ = lambda self, name: _swig_getattr(self, WeightedExcludedVolumeRestraint, name)
1049  def __init__(self, *args):
1050  """
1051  __init__(IMP::multifit::WeightedExcludedVolumeRestraint self, IMP::core::RigidBodies rbs, Refiner refiner, FloatKey weight_key=IMP::atom::Mass::get_mass_key()) -> WeightedExcludedVolumeRestraint
1052  __init__(IMP::multifit::WeightedExcludedVolumeRestraint self, IMP::core::RigidBodies rbs, Refiner refiner) -> WeightedExcludedVolumeRestraint
1053  """
1054  this = _IMP_multifit.new_WeightedExcludedVolumeRestraint(*args)
1055  try: self.this.append(this)
1056  except: self.this = this
1057  def do_get_inputs(self):
1058  """do_get_inputs(WeightedExcludedVolumeRestraint self) -> IMP::kernel::ModelObjectsTemp"""
1059  return _IMP_multifit.WeightedExcludedVolumeRestraint_do_get_inputs(self)
1060 
1061  def get_version_info(self):
1062  """get_version_info(WeightedExcludedVolumeRestraint self) -> VersionInfo"""
1063  return _IMP_multifit.WeightedExcludedVolumeRestraint_get_version_info(self)
1064 
1065  __swig_destroy__ = _IMP_multifit.delete_WeightedExcludedVolumeRestraint
1066  __del__ = lambda self : None;
1067  def __str__(self):
1068  """__str__(WeightedExcludedVolumeRestraint self) -> std::string"""
1069  return _IMP_multifit.WeightedExcludedVolumeRestraint___str__(self)
1070 
1071  def __repr__(self):
1072  """__repr__(WeightedExcludedVolumeRestraint self) -> std::string"""
1073  return _IMP_multifit.WeightedExcludedVolumeRestraint___repr__(self)
1074 
1075  def get_from(o):
1076  return _object_cast_to_WeightedExcludedVolumeRestraint(o)
1077  get_from = staticmethod(get_from)
1078 
1079 WeightedExcludedVolumeRestraint_swigregister = _IMP_multifit.WeightedExcludedVolumeRestraint_swigregister
1080 WeightedExcludedVolumeRestraint_swigregister(WeightedExcludedVolumeRestraint)
1081 
1082 class FFTFittingOutput(IMP.base.Object):
1083  """Proxy of C++ IMP::multifit::FFTFittingOutput class"""
1084  __swig_setmethods__ = {}
1085  for _s in [IMP.base.Object]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
1086  __setattr__ = lambda self, name, value: _swig_setattr(self, FFTFittingOutput, name, value)
1087  __swig_getmethods__ = {}
1088  for _s in [IMP.base.Object]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
1089  __getattr__ = lambda self, name: _swig_getattr(self, FFTFittingOutput, name)
1090  def __init__(self):
1091  """__init__(IMP::multifit::FFTFittingOutput self) -> FFTFittingOutput"""
1092  this = _IMP_multifit.new_FFTFittingOutput()
1093  try: self.this.append(this)
1094  except: self.this = this
1095  def get_version_info(self):
1096  """get_version_info(FFTFittingOutput self) -> VersionInfo"""
1097  return _IMP_multifit.FFTFittingOutput_get_version_info(self)
1098 
1099  __swig_destroy__ = _IMP_multifit.delete_FFTFittingOutput
1100  __del__ = lambda self : None;
1101  __swig_setmethods__["best_fits_"] = _IMP_multifit.FFTFittingOutput_best_fits__set
1102  __swig_getmethods__["best_fits_"] = _IMP_multifit.FFTFittingOutput_best_fits__get
1103  if _newclass:best_fits_ = _swig_property(_IMP_multifit.FFTFittingOutput_best_fits__get, _IMP_multifit.FFTFittingOutput_best_fits__set)
1104  __swig_setmethods__["best_trans_per_rot_"] = _IMP_multifit.FFTFittingOutput_best_trans_per_rot__set
1105  __swig_getmethods__["best_trans_per_rot_"] = _IMP_multifit.FFTFittingOutput_best_trans_per_rot__get
1106  if _newclass:best_trans_per_rot_ = _swig_property(_IMP_multifit.FFTFittingOutput_best_trans_per_rot__get, _IMP_multifit.FFTFittingOutput_best_trans_per_rot__set)
1107  def __str__(self):
1108  """__str__(FFTFittingOutput self) -> std::string"""
1109  return _IMP_multifit.FFTFittingOutput___str__(self)
1110 
1111  def __repr__(self):
1112  """__repr__(FFTFittingOutput self) -> std::string"""
1113  return _IMP_multifit.FFTFittingOutput___repr__(self)
1114 
1115  def get_from(o):
1116  return _object_cast_to_FFTFittingOutput(o)
1117  get_from = staticmethod(get_from)
1118 
1119 FFTFittingOutput_swigregister = _IMP_multifit.FFTFittingOutput_swigregister
1120 FFTFittingOutput_swigregister(FFTFittingOutput)
1121 
1122 class FFTFitting(IMP.base.Object):
1123  """Proxy of C++ IMP::multifit::FFTFitting class"""
1124  __swig_setmethods__ = {}
1125  for _s in [IMP.base.Object]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
1126  __setattr__ = lambda self, name, value: _swig_setattr(self, FFTFitting, name, value)
1127  __swig_getmethods__ = {}
1128  for _s in [IMP.base.Object]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
1129  __getattr__ = lambda self, name: _swig_getattr(self, FFTFitting, name)
1130  def get_version_info(self):
1131  """get_version_info(FFTFitting self) -> VersionInfo"""
1132  return _IMP_multifit.FFTFitting_get_version_info(self)
1133 
1134  __swig_destroy__ = _IMP_multifit.delete_FFTFitting
1135  __del__ = lambda self : None;
1136  def __init__(self):
1137  """__init__(IMP::multifit::FFTFitting self) -> FFTFitting"""
1138  this = _IMP_multifit.new_FFTFitting()
1139  try: self.this.append(this)
1140  except: self.this = this
1141  def do_global_fitting(self, *args):
1142  """
1143  do_global_fitting(FFTFitting self, DensityMap dmap, double density_threshold, Hierarchy mol2fit, double angle_sampling_interval_rad,
1144  int num_fits_to_report, double max_clustering_translation,
1145  double max_clustering_angle, bool cluster_fits=True, int num_angle_per_voxel=1,
1146  std::string const & angles_filename="") -> FFTFittingOutput
1147  do_global_fitting(FFTFitting self, DensityMap dmap, double density_threshold, Hierarchy mol2fit, double angle_sampling_interval_rad,
1148  int num_fits_to_report, double max_clustering_translation,
1149  double max_clustering_angle, bool cluster_fits=True, int num_angle_per_voxel=1) -> FFTFittingOutput
1150  do_global_fitting(FFTFitting self, DensityMap dmap, double density_threshold, Hierarchy mol2fit, double angle_sampling_interval_rad,
1151  int num_fits_to_report, double max_clustering_translation,
1152  double max_clustering_angle, bool cluster_fits=True) -> FFTFittingOutput
1153  do_global_fitting(FFTFitting self, DensityMap dmap, double density_threshold, Hierarchy mol2fit, double angle_sampling_interval_rad,
1154  int num_fits_to_report, double max_clustering_translation,
1155  double max_clustering_angle) -> FFTFittingOutput
1156  """
1157  return _IMP_multifit.FFTFitting_do_global_fitting(self, *args)
1158 
1159  def do_local_fitting(self, *args):
1160  """
1161  do_local_fitting(FFTFitting self, DensityMap dmap, double density_threshold, Hierarchy mol2fit, double angle_sampling_interval_rad,
1162  double max_angle_sampling_rad, double max_translation, int num_fits_to_report,
1163  bool cluster_fits, int num_angle_per_voxel, double max_clustering_translation,
1164  double max_clustering_rotation, std::string const & angles_filename="") -> FFTFittingOutput
1165  do_local_fitting(FFTFitting self, DensityMap dmap, double density_threshold, Hierarchy mol2fit, double angle_sampling_interval_rad,
1166  double max_angle_sampling_rad, double max_translation, int num_fits_to_report,
1167  bool cluster_fits, int num_angle_per_voxel, double max_clustering_translation,
1168  double max_clustering_rotation) -> FFTFittingOutput
1169  """
1170  return _IMP_multifit.FFTFitting_do_local_fitting(self, *args)
1171 
1172  def __str__(self):
1173  """__str__(FFTFitting self) -> std::string"""
1174  return _IMP_multifit.FFTFitting___str__(self)
1175 
1176  def __repr__(self):
1177  """__repr__(FFTFitting self) -> std::string"""
1178  return _IMP_multifit.FFTFitting___repr__(self)
1179 
1180  def get_from(o):
1181  return _object_cast_to_FFTFitting(o)
1182  get_from = staticmethod(get_from)
1183 
1184 FFTFitting_swigregister = _IMP_multifit.FFTFitting_swigregister
1185 FFTFitting_swigregister(FFTFitting)
1186 
1187 
1188 def fft_based_rigid_fitting(*args):
1189  """fft_based_rigid_fitting(Hierarchy mol2fit, DensityMap dmap, double density_threshold, double angle_sampling_interval_rad) -> IMP::multifit::FittingSolutionRecords"""
1190  return _IMP_multifit.fft_based_rigid_fitting(*args)
1191 
1192 def get_density_histogram(*args):
1193  """get_density_histogram(DensityMap dmap, float threshold, int num_bins) -> Histogram"""
1194  return _IMP_multifit.get_density_histogram(*args)
1195 
1196 def remove_background(*args):
1197  """remove_background(DensityMap dmap, float threshold, float edge_threshold) -> DensityMap"""
1198  return _IMP_multifit.remove_background(*args)
1199 
1200 def get_connected_components(*args):
1201  """get_connected_components(DensityMap dmap, float threshold, float edge_threshold) -> IMP::IntsList"""
1202  return _IMP_multifit.get_connected_components(*args)
1203 
1204 def get_segmentation(*args):
1205  """
1206  get_segmentation(DensityMap dmap, double apix, double density_threshold, int num_means, std::string const pdb_filename,
1207  std::string const cmm_filename, std::string const seg_filename,
1208  std::string const txt_filename)
1209  """
1210  return _IMP_multifit.get_segmentation(*args)
1211 class ComplementarityRestraint(IMP.kernel.Restraint):
1212  """Proxy of C++ IMP::multifit::ComplementarityRestraint class"""
1213  __swig_setmethods__ = {}
1214  for _s in [IMP.kernel.Restraint]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
1215  __setattr__ = lambda self, name, value: _swig_setattr(self, ComplementarityRestraint, name, value)
1216  __swig_getmethods__ = {}
1217  for _s in [IMP.kernel.Restraint]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
1218  __getattr__ = lambda self, name: _swig_getattr(self, ComplementarityRestraint, name)
1219  def __init__(self, *args):
1220  """
1221  __init__(IMP::multifit::ComplementarityRestraint self, IMP::kernel::ParticlesTemp const & a, IMP::kernel::ParticlesTemp const & b, std::string name="ComplementarityRestraint %1%") -> ComplementarityRestraint
1222  __init__(IMP::multifit::ComplementarityRestraint self, IMP::kernel::ParticlesTemp const & a, IMP::kernel::ParticlesTemp const & b) -> ComplementarityRestraint
1223  """
1224  this = _IMP_multifit.new_ComplementarityRestraint(*args)
1225  try: self.this.append(this)
1226  except: self.this = this
1227  def set_maximum_penetration_score(self, *args):
1228  """set_maximum_penetration_score(ComplementarityRestraint self, double s)"""
1229  return _IMP_multifit.ComplementarityRestraint_set_maximum_penetration_score(self, *args)
1230 
1231  def set_maximum_penetration(self, *args):
1232  """set_maximum_penetration(ComplementarityRestraint self, double d)"""
1233  return _IMP_multifit.ComplementarityRestraint_set_maximum_penetration(self, *args)
1234 
1235  def set_maximum_separation(self, *args):
1236  """set_maximum_separation(ComplementarityRestraint self, double s)"""
1237  return _IMP_multifit.ComplementarityRestraint_set_maximum_separation(self, *args)
1238 
1239  def set_complementarity_thickness(self, *args):
1240  """set_complementarity_thickness(ComplementarityRestraint self, double th)"""
1241  return _IMP_multifit.ComplementarityRestraint_set_complementarity_thickness(self, *args)
1242 
1243  def set_complementarity_value(self, *args):
1244  """set_complementarity_value(ComplementarityRestraint self, double th)"""
1245  return _IMP_multifit.ComplementarityRestraint_set_complementarity_value(self, *args)
1246 
1247  def set_interior_layer_thickness(self, *args):
1248  """set_interior_layer_thickness(ComplementarityRestraint self, double th)"""
1249  return _IMP_multifit.ComplementarityRestraint_set_interior_layer_thickness(self, *args)
1250 
1251  def set_penetration_coefficient(self, *args):
1252  """set_penetration_coefficient(ComplementarityRestraint self, double pc)"""
1253  return _IMP_multifit.ComplementarityRestraint_set_penetration_coefficient(self, *args)
1254 
1255  def set_complementarity_coefficient(self, *args):
1256  """set_complementarity_coefficient(ComplementarityRestraint self, double cc)"""
1257  return _IMP_multifit.ComplementarityRestraint_set_complementarity_coefficient(self, *args)
1258 
1259  def set_boundary_coefficient(self, *args):
1260  """set_boundary_coefficient(ComplementarityRestraint self, double bc)"""
1261  return _IMP_multifit.ComplementarityRestraint_set_boundary_coefficient(self, *args)
1262 
1263  def get_voxel_size(self):
1264  """get_voxel_size(ComplementarityRestraint self) -> float"""
1265  return _IMP_multifit.ComplementarityRestraint_get_voxel_size(self)
1266 
1267  def do_get_inputs(self):
1268  """do_get_inputs(ComplementarityRestraint self) -> IMP::kernel::ModelObjectsTemp"""
1269  return _IMP_multifit.ComplementarityRestraint_do_get_inputs(self)
1270 
1271  def get_version_info(self):
1272  """get_version_info(ComplementarityRestraint self) -> VersionInfo"""
1273  return _IMP_multifit.ComplementarityRestraint_get_version_info(self)
1274 
1275  __swig_destroy__ = _IMP_multifit.delete_ComplementarityRestraint
1276  __del__ = lambda self : None;
1277  def __str__(self):
1278  """__str__(ComplementarityRestraint self) -> std::string"""
1279  return _IMP_multifit.ComplementarityRestraint___str__(self)
1280 
1281  def __repr__(self):
1282  """__repr__(ComplementarityRestraint self) -> std::string"""
1283  return _IMP_multifit.ComplementarityRestraint___repr__(self)
1284 
1285  def get_from(o):
1286  return _object_cast_to_ComplementarityRestraint(o)
1287  get_from = staticmethod(get_from)
1288 
1289 ComplementarityRestraint_swigregister = _IMP_multifit.ComplementarityRestraint_swigregister
1290 ComplementarityRestraint_swigregister(ComplementarityRestraint)
1291 
1292 
1293 def read_fitting_solutions(*args):
1294  """read_fitting_solutions(char const * fitting_fn) -> IMP::multifit::FittingSolutionRecords"""
1295  return _IMP_multifit.read_fitting_solutions(*args)
1296 
1297 def write_fitting_solutions(*args):
1298  """
1299  write_fitting_solutions(char const * fitting_fn, IMP::multifit::FittingSolutionRecords const & fit_sols,
1300  int num_sols=-1)
1301  write_fitting_solutions(char const * fitting_fn, IMP::multifit::FittingSolutionRecords const & fit_sols)
1302  """
1303  return _IMP_multifit.write_fitting_solutions(*args)
1304 
1305 def convert_em_to_multifit_format(*args):
1306  """convert_em_to_multifit_format(FittingSolutions em_fits) -> IMP::multifit::FittingSolutionRecords"""
1307  return _IMP_multifit.convert_em_to_multifit_format(*args)
1308 
1309 def convert_multifit_to_em_format(*args):
1310  """convert_multifit_to_em_format(IMP::multifit::FittingSolutionRecords const & multifit_fits) -> FittingSolutions"""
1311  return _IMP_multifit.convert_multifit_to_em_format(*args)
1312 
1313 def convert_transformations_to_multifit_format(*args):
1314  """convert_transformations_to_multifit_format(IMP::algebra::Transformation3Ds const & trans) -> IMP::multifit::FittingSolutionRecords"""
1315  return _IMP_multifit.convert_transformations_to_multifit_format(*args)
1316 
1317 def convert_multifit_format_to_transformations(*args):
1318  """convert_multifit_format_to_transformations(IMP::multifit::FittingSolutionRecords const & recs) -> IMP::algebra::Transformation3Ds"""
1319  return _IMP_multifit.convert_multifit_format_to_transformations(*args)
1320 
1321 def get_close_to_point(*args):
1322  """
1323  get_close_to_point(IMP::multifit::FittingSolutionRecords const & fit_sols, Hierarchy mh, Particle ap,
1324  IMP::Float dist) -> IMP::multifit::FittingSolutionRecords
1325  """
1326  return _IMP_multifit.get_close_to_point(*args)
1327 class ProbabilisticAnchorGraph(IMP.base.Object):
1328  """Proxy of C++ IMP::multifit::ProbabilisticAnchorGraph class"""
1329  __swig_setmethods__ = {}
1330  for _s in [IMP.base.Object]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
1331  __setattr__ = lambda self, name, value: _swig_setattr(self, ProbabilisticAnchorGraph, name, value)
1332  __swig_getmethods__ = {}
1333  for _s in [IMP.base.Object]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
1334  __getattr__ = lambda self, name: _swig_getattr(self, ProbabilisticAnchorGraph, name)
1335  def __init__(self, *args):
1336  """__init__(IMP::multifit::ProbabilisticAnchorGraph self, IMP::algebra::Vector3Ds anchor_positions) -> ProbabilisticAnchorGraph"""
1337  this = _IMP_multifit.new_ProbabilisticAnchorGraph(*args)
1338  try: self.this.append(this)
1339  except: self.this = this
1340  def add_edge(self, *args):
1341  """add_edge(ProbabilisticAnchorGraph self, int i, int j)"""
1342  return _IMP_multifit.ProbabilisticAnchorGraph_add_edge(self, *args)
1343 
1344  def set_particle_probabilities_on_anchors(self, *args):
1345  """set_particle_probabilities_on_anchors(ProbabilisticAnchorGraph self, Particle p, IMP::multifit::FittingSolutionRecords sols)"""
1346  return _IMP_multifit.ProbabilisticAnchorGraph_set_particle_probabilities_on_anchors(self, *args)
1347 
1348  def show(self, *args):
1349  """
1350  show(ProbabilisticAnchorGraph self, _ostream out=std::cout)
1351  show(ProbabilisticAnchorGraph self)
1352  """
1353  return _IMP_multifit.ProbabilisticAnchorGraph_show(self, *args)
1354 
1355  def get_number_of_anchors(self):
1356  """get_number_of_anchors(ProbabilisticAnchorGraph self) -> unsigned int"""
1357  return _IMP_multifit.ProbabilisticAnchorGraph_get_number_of_anchors(self)
1358 
1359  def get_number_of_edges(self):
1360  """get_number_of_edges(ProbabilisticAnchorGraph self) -> unsigned int"""
1361  return _IMP_multifit.ProbabilisticAnchorGraph_get_number_of_edges(self)
1362 
1363  def get_edge_list(self):
1364  """get_edge_list(ProbabilisticAnchorGraph self) -> IMP::IntRanges"""
1365  return _IMP_multifit.ProbabilisticAnchorGraph_get_edge_list(self)
1366 
1367  def get_anchors(self):
1368  """get_anchors(ProbabilisticAnchorGraph self) -> IMP::algebra::Vector3Ds"""
1369  return _IMP_multifit.ProbabilisticAnchorGraph_get_anchors(self)
1370 
1371  def get_particle_anchors(self, *args):
1372  """
1373  get_particle_anchors(ProbabilisticAnchorGraph self, Particle p, float min_prob=0) -> IMP::algebra::Vector3Ds
1374  get_particle_anchors(ProbabilisticAnchorGraph self, Particle p) -> IMP::algebra::Vector3Ds
1375  """
1376  return _IMP_multifit.ProbabilisticAnchorGraph_get_particle_anchors(self, *args)
1377 
1378  def get_are_probabilities_for_particle_set(self, *args):
1379  """get_are_probabilities_for_particle_set(ProbabilisticAnchorGraph self, Particle p) -> bool"""
1380  return _IMP_multifit.ProbabilisticAnchorGraph_get_are_probabilities_for_particle_set(self, *args)
1381 
1382  def get_particle_probabilities(self, *args):
1383  """get_particle_probabilities(ProbabilisticAnchorGraph self, Particle p) -> IMP::Floats"""
1384  return _IMP_multifit.ProbabilisticAnchorGraph_get_particle_probabilities(self, *args)
1385 
1386  def get_version_info(self):
1387  """get_version_info(ProbabilisticAnchorGraph self) -> VersionInfo"""
1388  return _IMP_multifit.ProbabilisticAnchorGraph_get_version_info(self)
1389 
1390  __swig_destroy__ = _IMP_multifit.delete_ProbabilisticAnchorGraph
1391  __del__ = lambda self : None;
1392  def __str__(self):
1393  """__str__(ProbabilisticAnchorGraph self) -> std::string"""
1394  return _IMP_multifit.ProbabilisticAnchorGraph___str__(self)
1395 
1396  def __repr__(self):
1397  """__repr__(ProbabilisticAnchorGraph self) -> std::string"""
1398  return _IMP_multifit.ProbabilisticAnchorGraph___repr__(self)
1399 
1400  def get_from(o):
1401  return _object_cast_to_ProbabilisticAnchorGraph(o)
1402  get_from = staticmethod(get_from)
1403 
1404 ProbabilisticAnchorGraph_swigregister = _IMP_multifit.ProbabilisticAnchorGraph_swigregister
1405 ProbabilisticAnchorGraph_swigregister(ProbabilisticAnchorGraph)
1406 
1407 class ProteinRecordData(_object):
1408  """Proxy of C++ IMP::multifit::ProteinRecordData class"""
1409  __swig_setmethods__ = {}
1410  __setattr__ = lambda self, name, value: _swig_setattr(self, ProteinRecordData, name, value)
1411  __swig_getmethods__ = {}
1412  __getattr__ = lambda self, name: _swig_getattr(self, ProteinRecordData, name)
1413  def reset_all(self):
1414  """reset_all(ProteinRecordData self)"""
1415  return _IMP_multifit.ProteinRecordData_reset_all(self)
1416 
1417  def __init__(self, *args):
1418  """
1419  __init__(IMP::multifit::ProteinRecordData self) -> ProteinRecordData
1420  __init__(IMP::multifit::ProteinRecordData self, std::string const & name) -> ProteinRecordData
1421  __init__(IMP::multifit::ProteinRecordData self, std::string const & name, std::string const fn) -> ProteinRecordData
1422  __init__(IMP::multifit::ProteinRecordData self, std::string const & name, int start_res, int end_res, std::string const fn) -> ProteinRecordData
1423  __init__(IMP::multifit::ProteinRecordData self, std::string const & name, int start_res, int end_res, std::string const & fn, std::string const & surface_fn,
1424  std::string const & ref_fn) -> ProteinRecordData
1425  """
1426  this = _IMP_multifit.new_ProteinRecordData(*args)
1427  try: self.this.append(this)
1428  except: self.this = this
1429  def show(self, *args):
1430  """
1431  show(ProteinRecordData self, _ostream out=std::cout)
1432  show(ProteinRecordData self)
1433  """
1434  return _IMP_multifit.ProteinRecordData_show(self, *args)
1435 
1436  __swig_setmethods__["name_"] = _IMP_multifit.ProteinRecordData_name__set
1437  __swig_getmethods__["name_"] = _IMP_multifit.ProteinRecordData_name__get
1438  if _newclass:name_ = _swig_property(_IMP_multifit.ProteinRecordData_name__get, _IMP_multifit.ProteinRecordData_name__set)
1439  __swig_setmethods__["start_res_"] = _IMP_multifit.ProteinRecordData_start_res__set
1440  __swig_getmethods__["start_res_"] = _IMP_multifit.ProteinRecordData_start_res__get
1441  if _newclass:start_res_ = _swig_property(_IMP_multifit.ProteinRecordData_start_res__get, _IMP_multifit.ProteinRecordData_start_res__set)
1442  __swig_setmethods__["end_res_"] = _IMP_multifit.ProteinRecordData_end_res__set
1443  __swig_getmethods__["end_res_"] = _IMP_multifit.ProteinRecordData_end_res__get
1444  if _newclass:end_res_ = _swig_property(_IMP_multifit.ProteinRecordData_end_res__get, _IMP_multifit.ProteinRecordData_end_res__set)
1445  __swig_setmethods__["filename_"] = _IMP_multifit.ProteinRecordData_filename__set
1446  __swig_getmethods__["filename_"] = _IMP_multifit.ProteinRecordData_filename__get
1447  if _newclass:filename_ = _swig_property(_IMP_multifit.ProteinRecordData_filename__get, _IMP_multifit.ProteinRecordData_filename__set)
1448  __swig_setmethods__["surface_filename_"] = _IMP_multifit.ProteinRecordData_surface_filename__set
1449  __swig_getmethods__["surface_filename_"] = _IMP_multifit.ProteinRecordData_surface_filename__get
1450  if _newclass:surface_filename_ = _swig_property(_IMP_multifit.ProteinRecordData_surface_filename__get, _IMP_multifit.ProteinRecordData_surface_filename__set)
1451  __swig_setmethods__["ref_filename_"] = _IMP_multifit.ProteinRecordData_ref_filename__set
1452  __swig_getmethods__["ref_filename_"] = _IMP_multifit.ProteinRecordData_ref_filename__get
1453  if _newclass:ref_filename_ = _swig_property(_IMP_multifit.ProteinRecordData_ref_filename__get, _IMP_multifit.ProteinRecordData_ref_filename__set)
1454  def __str__(self):
1455  """__str__(ProteinRecordData self) -> std::string"""
1456  return _IMP_multifit.ProteinRecordData___str__(self)
1457 
1458  def __repr__(self):
1459  """__repr__(ProteinRecordData self) -> std::string"""
1460  return _IMP_multifit.ProteinRecordData___repr__(self)
1461 
1462  __swig_destroy__ = _IMP_multifit.delete_ProteinRecordData
1463  __del__ = lambda self : None;
1464 ProteinRecordData_swigregister = _IMP_multifit.ProteinRecordData_swigregister
1465 ProteinRecordData_swigregister(ProteinRecordData)
1466 
1467 class ProteomicsData(IMP.base.Object):
1468  """Proxy of C++ IMP::multifit::ProteomicsData class"""
1469  __swig_setmethods__ = {}
1470  for _s in [IMP.base.Object]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
1471  __setattr__ = lambda self, name, value: _swig_setattr(self, ProteomicsData, name, value)
1472  __swig_getmethods__ = {}
1473  for _s in [IMP.base.Object]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
1474  __getattr__ = lambda self, name: _swig_getattr(self, ProteomicsData, name)
1475  def __init__(self):
1476  """__init__(IMP::multifit::ProteomicsData self) -> ProteomicsData"""
1477  this = _IMP_multifit.new_ProteomicsData()
1478  try: self.this.append(this)
1479  except: self.this = this
1480  def add_protein(self, *args):
1481  """
1482  add_protein(ProteomicsData self, std::string name, int start_res, int end_res, std::string const & mol_fn, std::string const & surface_fn,
1483  std::string const & ref_fn) -> int
1484  add_protein(ProteomicsData self, ProteinRecordData rec) -> int
1485  """
1486  return _IMP_multifit.ProteomicsData_add_protein(self, *args)
1487 
1488  def find(self, *args):
1489  """find(ProteomicsData self, std::string const & name) -> int"""
1490  return _IMP_multifit.ProteomicsData_find(self, *args)
1491 
1492  def add_interaction(self, *args):
1493  """add_interaction(ProteomicsData self, IMP::Ints const & ii, bool used_for_filter, float linker_len)"""
1494  return _IMP_multifit.ProteomicsData_add_interaction(self, *args)
1495 
1496  def add_cross_link_interaction(self, *args):
1497  """
1498  add_cross_link_interaction(ProteomicsData self, IMP::Int prot1, IMP::Int res1, IMP::Int prot2, IMP::Int res2, bool used_in_filter,
1499  IMP::Float linker_len)
1500  """
1501  return _IMP_multifit.ProteomicsData_add_cross_link_interaction(self, *args)
1502 
1503  def add_ev_pair(self, *args):
1504  """add_ev_pair(ProteomicsData self, IMP::Int prot1, IMP::Int prot2)"""
1505  return _IMP_multifit.ProteomicsData_add_ev_pair(self, *args)
1506 
1507  def get_number_of_proteins(self):
1508  """get_number_of_proteins(ProteomicsData self) -> int"""
1509  return _IMP_multifit.ProteomicsData_get_number_of_proteins(self)
1510 
1511  def get_number_of_interactions(self):
1512  """get_number_of_interactions(ProteomicsData self) -> int"""
1513  return _IMP_multifit.ProteomicsData_get_number_of_interactions(self)
1514 
1515  def get_interaction(self, *args):
1516  """get_interaction(ProteomicsData self, int interaction_ind) -> IMP::Ints"""
1517  return _IMP_multifit.ProteomicsData_get_interaction(self, *args)
1518 
1519  def get_interaction_part_of_filter(self, *args):
1520  """get_interaction_part_of_filter(ProteomicsData self, int interaction_ind) -> bool"""
1521  return _IMP_multifit.ProteomicsData_get_interaction_part_of_filter(self, *args)
1522 
1523  def get_interaction_linker_length(self, *args):
1524  """get_interaction_linker_length(ProteomicsData self, int interaction_ind) -> int"""
1525  return _IMP_multifit.ProteomicsData_get_interaction_linker_length(self, *args)
1526 
1527  def get_number_of_cross_links(self):
1528  """get_number_of_cross_links(ProteomicsData self) -> int"""
1529  return _IMP_multifit.ProteomicsData_get_number_of_cross_links(self)
1530 
1531  def get_cross_link(self, *args):
1532  """get_cross_link(ProteomicsData self, int xlink_ind) -> std::pair< IMP::IntPair,IMP::IntPair >"""
1533  return _IMP_multifit.ProteomicsData_get_cross_link(self, *args)
1534 
1535  def get_cross_link_part_of_filter(self, *args):
1536  """get_cross_link_part_of_filter(ProteomicsData self, int xlink_ind) -> bool"""
1537  return _IMP_multifit.ProteomicsData_get_cross_link_part_of_filter(self, *args)
1538 
1539  def get_cross_link_length(self, *args):
1540  """get_cross_link_length(ProteomicsData self, int xlink_ind) -> float"""
1541  return _IMP_multifit.ProteomicsData_get_cross_link_length(self, *args)
1542 
1543  def get_number_of_ev_pairs(self):
1544  """get_number_of_ev_pairs(ProteomicsData self) -> int"""
1545  return _IMP_multifit.ProteomicsData_get_number_of_ev_pairs(self)
1546 
1547  def get_ev_pair(self, *args):
1548  """get_ev_pair(ProteomicsData self, int ev_ind) -> IMP::IntPair"""
1549  return _IMP_multifit.ProteomicsData_get_ev_pair(self, *args)
1550 
1551  def get_protein_name(self, *args):
1552  """get_protein_name(ProteomicsData self, int protein_ind) -> std::string"""
1553  return _IMP_multifit.ProteomicsData_get_protein_name(self, *args)
1554 
1555  def get_end_res(self, *args):
1556  """get_end_res(ProteomicsData self, int protein_ind) -> int"""
1557  return _IMP_multifit.ProteomicsData_get_end_res(self, *args)
1558 
1559  def get_start_res(self, *args):
1560  """get_start_res(ProteomicsData self, int protein_ind) -> int"""
1561  return _IMP_multifit.ProteomicsData_get_start_res(self, *args)
1562 
1563  def get_protein_filename(self, *args):
1564  """get_protein_filename(ProteomicsData self, int protein_ind) -> std::string"""
1565  return _IMP_multifit.ProteomicsData_get_protein_filename(self, *args)
1566 
1567  def get_reference_filename(self, *args):
1568  """get_reference_filename(ProteomicsData self, int protein_ind) -> std::string"""
1569  return _IMP_multifit.ProteomicsData_get_reference_filename(self, *args)
1570 
1571  def get_surface_filename(self, *args):
1572  """get_surface_filename(ProteomicsData self, int protein_ind) -> std::string"""
1573  return _IMP_multifit.ProteomicsData_get_surface_filename(self, *args)
1574 
1575  def get_protein_data(self, *args):
1576  """get_protein_data(ProteomicsData self, int protein_ind) -> ProteinRecordData"""
1577  return _IMP_multifit.ProteomicsData_get_protein_data(self, *args)
1578 
1579  def get_version_info(self):
1580  """get_version_info(ProteomicsData self) -> VersionInfo"""
1581  return _IMP_multifit.ProteomicsData_get_version_info(self)
1582 
1583  __swig_destroy__ = _IMP_multifit.delete_ProteomicsData
1584  __del__ = lambda self : None;
1585  def get_num_allowed_violated_interactions(self):
1586  """get_num_allowed_violated_interactions(ProteomicsData self) -> int"""
1587  return _IMP_multifit.ProteomicsData_get_num_allowed_violated_interactions(self)
1588 
1589  def set_num_allowed_violated_interactions(self, *args):
1590  """set_num_allowed_violated_interactions(ProteomicsData self, int n)"""
1591  return _IMP_multifit.ProteomicsData_set_num_allowed_violated_interactions(self, *args)
1592 
1593  def get_num_allowed_violated_cross_links(self):
1594  """get_num_allowed_violated_cross_links(ProteomicsData self) -> int"""
1595  return _IMP_multifit.ProteomicsData_get_num_allowed_violated_cross_links(self)
1596 
1597  def set_num_allowed_violated_cross_links(self, *args):
1598  """set_num_allowed_violated_cross_links(ProteomicsData self, int n)"""
1599  return _IMP_multifit.ProteomicsData_set_num_allowed_violated_cross_links(self, *args)
1600 
1601  def get_num_allowed_violated_ev(self):
1602  """get_num_allowed_violated_ev(ProteomicsData self) -> int"""
1603  return _IMP_multifit.ProteomicsData_get_num_allowed_violated_ev(self)
1604 
1605  def set_num_allowed_violated_ev(self, *args):
1606  """set_num_allowed_violated_ev(ProteomicsData self, int n)"""
1607  return _IMP_multifit.ProteomicsData_set_num_allowed_violated_ev(self, *args)
1608 
1609  def __str__(self):
1610  """__str__(ProteomicsData self) -> std::string"""
1611  return _IMP_multifit.ProteomicsData___str__(self)
1612 
1613  def __repr__(self):
1614  """__repr__(ProteomicsData self) -> std::string"""
1615  return _IMP_multifit.ProteomicsData___repr__(self)
1616 
1617  def get_from(o):
1618  return _object_cast_to_ProteomicsData(o)
1619  get_from = staticmethod(get_from)
1620 
1621 ProteomicsData_swigregister = _IMP_multifit.ProteomicsData_swigregister
1622 ProteomicsData_swigregister(ProteomicsData)
1623 
1624 
1625 def read_proteomics_data(*args):
1626  """read_proteomics_data(char const * proteomics_fn) -> ProteomicsData"""
1627  return _IMP_multifit.read_proteomics_data(*args)
1628 
1629 def get_partial_proteomics_data(*args):
1630  """get_partial_proteomics_data(ProteomicsData pd, IMP::Strings const & prot_names) -> ProteomicsData"""
1631  return _IMP_multifit.get_partial_proteomics_data(*args)
1632 class AnchorsData(_object):
1633  """Proxy of C++ IMP::multifit::AnchorsData class"""
1634  __swig_setmethods__ = {}
1635  __setattr__ = lambda self, name, value: _swig_setattr(self, AnchorsData, name, value)
1636  __swig_getmethods__ = {}
1637  __getattr__ = lambda self, name: _swig_getattr(self, AnchorsData, name)
1638  def __init__(self, *args):
1639  """
1640  __init__(IMP::multifit::AnchorsData self) -> AnchorsData
1641  __init__(IMP::multifit::AnchorsData self, IMP::algebra::Vector3Ds points, IMP::IntPairs edges) -> AnchorsData
1642  """
1643  this = _IMP_multifit.new_AnchorsData(*args)
1644  try: self.this.append(this)
1645  except: self.this = this
1646  def remove_edges_for_node(self, *args):
1647  """remove_edges_for_node(AnchorsData self, int node_ind)"""
1648  return _IMP_multifit.AnchorsData_remove_edges_for_node(self, *args)
1649 
1650  def get_number_of_points(self):
1651  """get_number_of_points(AnchorsData self) -> int"""
1652  return _IMP_multifit.AnchorsData_get_number_of_points(self)
1653 
1654  def get_number_of_edges(self):
1655  """get_number_of_edges(AnchorsData self) -> int"""
1656  return _IMP_multifit.AnchorsData_get_number_of_edges(self)
1657 
1658  def get_is_point_considered(self, *args):
1659  """get_is_point_considered(AnchorsData self, int node_ind) -> bool"""
1660  return _IMP_multifit.AnchorsData_get_is_point_considered(self, *args)
1661 
1662  def show(self, *args):
1663  """
1664  show(AnchorsData self, _ostream out=std::cout)
1665  show(AnchorsData self)
1666  """
1667  return _IMP_multifit.AnchorsData_show(self, *args)
1668 
1669  def get_secondary_structure_is_set(self):
1670  """get_secondary_structure_is_set(AnchorsData self) -> bool"""
1671  return _IMP_multifit.AnchorsData_get_secondary_structure_is_set(self)
1672 
1673  def setup_secondary_structure(self, *args):
1674  """setup_secondary_structure(AnchorsData self, Model mdl)"""
1675  return _IMP_multifit.AnchorsData_setup_secondary_structure(self, *args)
1676 
1677  def set_secondary_structure_probabilities(self, *args):
1678  """
1679  set_secondary_structure_probabilities(AnchorsData self, IMP::kernel::Particles const & ssres_ps, IMP::Ints const & indices=IMP::Ints())
1680  set_secondary_structure_probabilities(AnchorsData self, IMP::kernel::Particles const & ssres_ps)
1681  """
1682  return _IMP_multifit.AnchorsData_set_secondary_structure_probabilities(self, *args)
1683 
1684  def get_secondary_structure_particles(self):
1685  """get_secondary_structure_particles(AnchorsData self) -> IMP::kernel::Particles"""
1686  return _IMP_multifit.AnchorsData_get_secondary_structure_particles(self)
1687 
1688  __swig_setmethods__["points_"] = _IMP_multifit.AnchorsData_points__set
1689  __swig_getmethods__["points_"] = _IMP_multifit.AnchorsData_points__get
1690  if _newclass:points_ = _swig_property(_IMP_multifit.AnchorsData_points__get, _IMP_multifit.AnchorsData_points__set)
1691  __swig_setmethods__["consider_point_"] = _IMP_multifit.AnchorsData_consider_point__set
1692  __swig_getmethods__["consider_point_"] = _IMP_multifit.AnchorsData_consider_point__get
1693  if _newclass:consider_point_ = _swig_property(_IMP_multifit.AnchorsData_consider_point__get, _IMP_multifit.AnchorsData_consider_point__set)
1694  __swig_setmethods__["edges_"] = _IMP_multifit.AnchorsData_edges__set
1695  __swig_getmethods__["edges_"] = _IMP_multifit.AnchorsData_edges__get
1696  if _newclass:edges_ = _swig_property(_IMP_multifit.AnchorsData_edges__get, _IMP_multifit.AnchorsData_edges__set)
1697  def __str__(self):
1698  """__str__(AnchorsData self) -> std::string"""
1699  return _IMP_multifit.AnchorsData___str__(self)
1700 
1701  def __repr__(self):
1702  """__repr__(AnchorsData self) -> std::string"""
1703  return _IMP_multifit.AnchorsData___repr__(self)
1704 
1705  __swig_destroy__ = _IMP_multifit.delete_AnchorsData
1706  __del__ = lambda self : None;
1707 AnchorsData_swigregister = _IMP_multifit.AnchorsData_swigregister
1708 AnchorsData_swigregister(AnchorsData)
1709 
1710 
1711 def read_anchors_data(*args):
1712  """read_anchors_data(char const * txt_filename) -> AnchorsData"""
1713  return _IMP_multifit.read_anchors_data(*args)
1714 
1715 def write_txt(*args):
1716  """write_txt(std::string const & txt_filename, AnchorsData ad)"""
1717  return _IMP_multifit.write_txt(*args)
1718 
1719 def write_cmm(*args):
1720  """write_cmm(std::string const & cmm_filename, std::string const & marker_set_name, AnchorsData dpa)"""
1721  return _IMP_multifit.write_cmm(*args)
1722 
1724  """
1725  create_coarse_molecule_from_molecule(Hierarchy mh, int num_beads, Model mdl, float bead_radius, bool add_conn_restraint=False) -> Hierarchy
1726  create_coarse_molecule_from_molecule(Hierarchy mh, int num_beads, Model mdl, float bead_radius) -> Hierarchy
1727  """
1728  return _IMP_multifit.create_coarse_molecule_from_molecule(*args)
1729 
1731  """
1732  create_coarse_molecules_from_molecules(IMP::atom::Hierarchies const & mhs, int frag_len, Model mdl, float bead_radius, bool add_conn_restraint=False) -> IMP::atom::Hierarchies
1733  create_coarse_molecules_from_molecules(IMP::atom::Hierarchies const & mhs, int frag_len, Model mdl, float bead_radius) -> IMP::atom::Hierarchies
1734  """
1735  return _IMP_multifit.create_coarse_molecules_from_molecules(*args)
1736 
1738  """create_coarse_molecule_from_density(DensityMap dmap, float dens_threshold, int num_beads, Model mdl, float bead_radius) -> Hierarchy"""
1739  return _IMP_multifit.create_coarse_molecule_from_density(*args)
1740 
1741 def create_hit_map(*args):
1742  """
1743  create_hit_map(RigidBody rb, Refiner rb_ref, IMP::multifit::FittingSolutionRecords const & sols,
1744  DensityMap damp) -> DensityMap
1745  """
1746  return _IMP_multifit.create_hit_map(*args)
1747 
1748 def get_points_close_to_molecule(*args):
1749  """get_points_close_to_molecule(Hierarchy mh, IMP::algebra::Vector3Ds const points, IMP::Float max_dist) -> IMP::algebra::Vector3Ds"""
1750  return _IMP_multifit.get_points_close_to_molecule(*args)
1751 
1752 def get_points_far_from_molecule(*args):
1753  """get_points_far_from_molecule(Hierarchy mh, IMP::algebra::Vector3Ds const points, IMP::Float max_dist) -> IMP::algebra::Vector3Ds"""
1754  return _IMP_multifit.get_points_far_from_molecule(*args)
1755 class RadiusOfGyrationRestraint(IMP.kernel.Restraint):
1756  """Proxy of C++ IMP::multifit::RadiusOfGyrationRestraint class"""
1757  __swig_setmethods__ = {}
1758  for _s in [IMP.kernel.Restraint]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
1759  __setattr__ = lambda self, name, value: _swig_setattr(self, RadiusOfGyrationRestraint, name, value)
1760  __swig_getmethods__ = {}
1761  for _s in [IMP.kernel.Restraint]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
1762  __getattr__ = lambda self, name: _swig_getattr(self, RadiusOfGyrationRestraint, name)
1763  def __init__(self, *args):
1764  """
1765  __init__(IMP::multifit::RadiusOfGyrationRestraint self, IMP::kernel::Particles ps, int num_residues, IMP::Float scale=1.) -> RadiusOfGyrationRestraint
1766  __init__(IMP::multifit::RadiusOfGyrationRestraint self, IMP::kernel::Particles ps, int num_residues) -> RadiusOfGyrationRestraint
1767  """
1768  this = _IMP_multifit.new_RadiusOfGyrationRestraint(*args)
1769  try: self.this.append(this)
1770  except: self.this = this
1771  def do_get_inputs(self):
1772  """do_get_inputs(RadiusOfGyrationRestraint self) -> IMP::kernel::ModelObjectsTemp"""
1773  return _IMP_multifit.RadiusOfGyrationRestraint_do_get_inputs(self)
1774 
1775  def get_version_info(self):
1776  """get_version_info(RadiusOfGyrationRestraint self) -> VersionInfo"""
1777  return _IMP_multifit.RadiusOfGyrationRestraint_get_version_info(self)
1778 
1779  __swig_destroy__ = _IMP_multifit.delete_RadiusOfGyrationRestraint
1780  __del__ = lambda self : None;
1781  def set_radius_of_gyration(self, *args):
1782  """set_radius_of_gyration(RadiusOfGyrationRestraint self, IMP::Float r)"""
1783  return _IMP_multifit.RadiusOfGyrationRestraint_set_radius_of_gyration(self, *args)
1784 
1785  def get_radius_of_gyration(self):
1786  """get_radius_of_gyration(RadiusOfGyrationRestraint self) -> IMP::Float"""
1787  return _IMP_multifit.RadiusOfGyrationRestraint_get_radius_of_gyration(self)
1788 
1789  def __str__(self):
1790  """__str__(RadiusOfGyrationRestraint self) -> std::string"""
1791  return _IMP_multifit.RadiusOfGyrationRestraint___str__(self)
1792 
1793  def __repr__(self):
1794  """__repr__(RadiusOfGyrationRestraint self) -> std::string"""
1795  return _IMP_multifit.RadiusOfGyrationRestraint___repr__(self)
1796 
1797  def get_from(o):
1798  return _object_cast_to_RadiusOfGyrationRestraint(o)
1799  get_from = staticmethod(get_from)
1800 
1801 RadiusOfGyrationRestraint_swigregister = _IMP_multifit.RadiusOfGyrationRestraint_swigregister
1802 RadiusOfGyrationRestraint_swigregister(RadiusOfGyrationRestraint)
1803 
1804 
1805 def get_approximated_radius_of_gyration(*args):
1806  """get_approximated_radius_of_gyration(int len) -> float"""
1807  return _IMP_multifit.get_approximated_radius_of_gyration(*args)
1808 
1809 def get_actual_radius_of_gyration(*args):
1810  """get_actual_radius_of_gyration(IMP::kernel::ParticlesTemp ps) -> float"""
1811  return _IMP_multifit.get_actual_radius_of_gyration(*args)
1812 
1813 def get_approximated_radius(*args):
1814  """get_approximated_radius(int len) -> float"""
1815  return _IMP_multifit.get_approximated_radius(*args)
1816 class ProteinsAnchorsSamplingSpace(_object):
1817  """Proxy of C++ IMP::multifit::ProteinsAnchorsSamplingSpace class"""
1818  __swig_setmethods__ = {}
1819  __setattr__ = lambda self, name, value: _swig_setattr(self, ProteinsAnchorsSamplingSpace, name, value)
1820  __swig_getmethods__ = {}
1821  __getattr__ = lambda self, name: _swig_getattr(self, ProteinsAnchorsSamplingSpace, name)
1822  def __init__(self, prots=None):
1823  """
1824  __init__(IMP::multifit::ProteinsAnchorsSamplingSpace self, ProteomicsData prots=None) -> ProteinsAnchorsSamplingSpace
1825  __init__(IMP::multifit::ProteinsAnchorsSamplingSpace self) -> ProteinsAnchorsSamplingSpace
1826  """
1827  this = _IMP_multifit.new_ProteinsAnchorsSamplingSpace(prots)
1828  try: self.this.append(this)
1829  except: self.this = this
1830  def set_anchors(self, *args):
1831  """set_anchors(ProteinsAnchorsSamplingSpace self, AnchorsData data)"""
1832  return _IMP_multifit.ProteinsAnchorsSamplingSpace_set_anchors(self, *args)
1833 
1834  def get_anchors(self):
1835  """get_anchors(ProteinsAnchorsSamplingSpace self) -> AnchorsData"""
1836  return _IMP_multifit.ProteinsAnchorsSamplingSpace_get_anchors(self)
1837 
1838  def get_anchors_filename(self):
1839  """get_anchors_filename(ProteinsAnchorsSamplingSpace self) -> std::string"""
1840  return _IMP_multifit.ProteinsAnchorsSamplingSpace_get_anchors_filename(self)
1841 
1842  def set_anchors_filename(self, *args):
1843  """set_anchors_filename(ProteinsAnchorsSamplingSpace self, std::string const & fn)"""
1844  return _IMP_multifit.ProteinsAnchorsSamplingSpace_set_anchors_filename(self, *args)
1845 
1846  def get_proteomics_data(self):
1847  """get_proteomics_data(ProteinsAnchorsSamplingSpace self) -> ProteomicsData"""
1848  return _IMP_multifit.ProteinsAnchorsSamplingSpace_get_proteomics_data(self)
1849 
1850  def add_protein(self, *args):
1851  """add_protein(ProteinsAnchorsSamplingSpace self, ProteinRecordData rec)"""
1852  return _IMP_multifit.ProteinsAnchorsSamplingSpace_add_protein(self, *args)
1853 
1854  def get_paths_for_protein(self, *args):
1855  """get_paths_for_protein(ProteinsAnchorsSamplingSpace self, std::string const & prot_name) -> IMP::IntsList"""
1856  return _IMP_multifit.ProteinsAnchorsSamplingSpace_get_paths_for_protein(self, *args)
1857 
1858  def set_paths_filename_for_protein(self, *args):
1859  """set_paths_filename_for_protein(ProteinsAnchorsSamplingSpace self, std::string const & prot_name, std::string const & paths_filename)"""
1860  return _IMP_multifit.ProteinsAnchorsSamplingSpace_set_paths_filename_for_protein(self, *args)
1861 
1862  def get_paths_filename_for_protein(self, *args):
1863  """get_paths_filename_for_protein(ProteinsAnchorsSamplingSpace self, std::string const & prot_name) -> std::string"""
1864  return _IMP_multifit.ProteinsAnchorsSamplingSpace_get_paths_filename_for_protein(self, *args)
1865 
1866  def set_paths_for_protein(self, *args):
1867  """set_paths_for_protein(ProteinsAnchorsSamplingSpace self, std::string const & prot_name, IMP::IntsList paths)"""
1868  return _IMP_multifit.ProteinsAnchorsSamplingSpace_set_paths_for_protein(self, *args)
1869 
1870  def show(self, *args):
1871  """
1872  show(ProteinsAnchorsSamplingSpace self, _ostream s=std::cout)
1873  show(ProteinsAnchorsSamplingSpace self)
1874  """
1875  return _IMP_multifit.ProteinsAnchorsSamplingSpace_show(self, *args)
1876 
1877  def __str__(self):
1878  """__str__(ProteinsAnchorsSamplingSpace self) -> std::string"""
1879  return _IMP_multifit.ProteinsAnchorsSamplingSpace___str__(self)
1880 
1881  def __repr__(self):
1882  """__repr__(ProteinsAnchorsSamplingSpace self) -> std::string"""
1883  return _IMP_multifit.ProteinsAnchorsSamplingSpace___repr__(self)
1884 
1885  __swig_destroy__ = _IMP_multifit.delete_ProteinsAnchorsSamplingSpace
1886  __del__ = lambda self : None;
1887 ProteinsAnchorsSamplingSpace_swigregister = _IMP_multifit.ProteinsAnchorsSamplingSpace_swigregister
1888 ProteinsAnchorsSamplingSpace_swigregister(ProteinsAnchorsSamplingSpace)
1889 
1890 
1891 def read_protein_anchors_mapping(*args):
1892  """
1893  read_protein_anchors_mapping(ProteomicsData prots, std::string const & anchors_prot_map_fn, int max_paths=INT_MAX) -> ProteinsAnchorsSamplingSpace
1894  read_protein_anchors_mapping(ProteomicsData prots, std::string const & anchors_prot_map_fn) -> ProteinsAnchorsSamplingSpace
1895  """
1896  return _IMP_multifit.read_protein_anchors_mapping(*args)
1897 
1898 def write_protein_anchors_mapping(*args):
1899  """
1900  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)
1901  write_protein_anchors_mapping(std::string const & anchors_prot_map_fn, ProteinsAnchorsSamplingSpace pa, IMP::Strings const & prot_names)
1902  """
1903  return _IMP_multifit.write_protein_anchors_mapping(*args)
1904 
1905 def get_part_of_sampling_space(*args):
1906  """get_part_of_sampling_space(ProteinsAnchorsSamplingSpace prots_ss, IMP::Strings const & prot_names) -> ProteinsAnchorsSamplingSpace"""
1907  return _IMP_multifit.get_part_of_sampling_space(*args)
1908 
1910  """get_partial_assembly_setting_data(SettingsData prots_sd, IMP::Strings const & prot_names) -> SettingsData"""
1911  return _IMP_multifit.get_partial_assembly_setting_data(*args)
1912 
1913 def read_paths(*args):
1914  """
1915  read_paths(char const * txt_filename, int max_paths=INT_MAX) -> IMP::IntsList
1916  read_paths(char const * txt_filename) -> IMP::IntsList
1917  """
1918  return _IMP_multifit.read_paths(*args)
1919 
1920 def write_paths(*args):
1921  """write_paths(IMP::IntsList const & paths, std::string const & txt_filename)"""
1922  return _IMP_multifit.write_paths(*args)
1923 
1924 def molecule2anchors(*args):
1925  """molecule2anchors(Hierarchy mh, int k) -> AnchorsData"""
1926  return _IMP_multifit.molecule2anchors(*args)
1927 
1928 def get_anchors_for_density(*args):
1929  """
1930  get_anchors_for_density(DensityMap dmap, int number_of_means, float density_threshold, std::string pdb_filename,
1931  std::string cmm_filename, std::string seg_filename, std::string txt_filename)
1932  """
1933  return _IMP_multifit.get_anchors_for_density(*args)
1934 
1936  """
1937  get_anchor_indices_matching_secondary_structure(AnchorsData ad, IMP::atom::SecondaryStructureResidues const & ssrs, IMP::Float max_rmsd=0.7) -> IMP::IntsList
1938  get_anchor_indices_matching_secondary_structure(AnchorsData ad, IMP::atom::SecondaryStructureResidues const & ssrs) -> IMP::IntsList
1939  """
1940  return _IMP_multifit.get_anchor_indices_matching_secondary_structure(*args)
1941 class DominoParams(_object):
1942  """Proxy of C++ IMP::multifit::DominoParams class"""
1943  __swig_setmethods__ = {}
1944  __setattr__ = lambda self, name, value: _swig_setattr(self, DominoParams, name, value)
1945  __swig_getmethods__ = {}
1946  __getattr__ = lambda self, name: _swig_getattr(self, DominoParams, name)
1947  def __init__(self):
1948  """__init__(IMP::multifit::DominoParams self) -> DominoParams"""
1949  this = _IMP_multifit.new_DominoParams()
1950  try: self.this.append(this)
1951  except: self.this = this
1952  def add(self, *args):
1953  """add(DominoParams self, boost::property_tree::ptree const & pt)"""
1954  return _IMP_multifit.DominoParams_add(self, *args)
1955 
1956  def show(self, *args):
1957  """
1958  show(DominoParams self, _ostream s=std::cout)
1959  show(DominoParams self)
1960  """
1961  return _IMP_multifit.DominoParams_show(self, *args)
1962 
1963  __swig_setmethods__["max_value_threshold_"] = _IMP_multifit.DominoParams_max_value_threshold__set
1964  __swig_getmethods__["max_value_threshold_"] = _IMP_multifit.DominoParams_max_value_threshold__get
1965  if _newclass:max_value_threshold_ = _swig_property(_IMP_multifit.DominoParams_max_value_threshold__get, _IMP_multifit.DominoParams_max_value_threshold__set)
1966  __swig_setmethods__["max_num_states_for_subset_"] = _IMP_multifit.DominoParams_max_num_states_for_subset__set
1967  __swig_getmethods__["max_num_states_for_subset_"] = _IMP_multifit.DominoParams_max_num_states_for_subset__get
1968  if _newclass:max_num_states_for_subset_ = _swig_property(_IMP_multifit.DominoParams_max_num_states_for_subset__get, _IMP_multifit.DominoParams_max_num_states_for_subset__set)
1969  __swig_setmethods__["max_anchor_penetration_"] = _IMP_multifit.DominoParams_max_anchor_penetration__set
1970  __swig_getmethods__["max_anchor_penetration_"] = _IMP_multifit.DominoParams_max_anchor_penetration__get
1971  if _newclass:max_anchor_penetration_ = _swig_property(_IMP_multifit.DominoParams_max_anchor_penetration__get, _IMP_multifit.DominoParams_max_anchor_penetration__set)
1972  __swig_setmethods__["heap_size_"] = _IMP_multifit.DominoParams_heap_size__set
1973  __swig_getmethods__["heap_size_"] = _IMP_multifit.DominoParams_heap_size__get
1974  if _newclass:heap_size_ = _swig_property(_IMP_multifit.DominoParams_heap_size__get, _IMP_multifit.DominoParams_heap_size__set)
1975  __swig_setmethods__["cache_size_"] = _IMP_multifit.DominoParams_cache_size__set
1976  __swig_getmethods__["cache_size_"] = _IMP_multifit.DominoParams_cache_size__get
1977  if _newclass:cache_size_ = _swig_property(_IMP_multifit.DominoParams_cache_size__get, _IMP_multifit.DominoParams_cache_size__set)
1978  def __str__(self):
1979  """__str__(DominoParams self) -> std::string"""
1980  return _IMP_multifit.DominoParams___str__(self)
1981 
1982  def __repr__(self):
1983  """__repr__(DominoParams self) -> std::string"""
1984  return _IMP_multifit.DominoParams___repr__(self)
1985 
1986  __swig_destroy__ = _IMP_multifit.delete_DominoParams
1987  __del__ = lambda self : None;
1988 DominoParams_swigregister = _IMP_multifit.DominoParams_swigregister
1989 DominoParams_swigregister(DominoParams)
1990 
1991 class XlinkParams(_object):
1992  """Proxy of C++ IMP::multifit::XlinkParams class"""
1993  __swig_setmethods__ = {}
1994  __setattr__ = lambda self, name, value: _swig_setattr(self, XlinkParams, name, value)
1995  __swig_getmethods__ = {}
1996  __getattr__ = lambda self, name: _swig_getattr(self, XlinkParams, name)
1997  def __init__(self):
1998  """__init__(IMP::multifit::XlinkParams self) -> XlinkParams"""
1999  this = _IMP_multifit.new_XlinkParams()
2000  try: self.this.append(this)
2001  except: self.this = this
2002  def add(self, *args):
2003  """add(XlinkParams self, boost::property_tree::ptree const & pt)"""
2004  return _IMP_multifit.XlinkParams_add(self, *args)
2005 
2006  def show(self, *args):
2007  """
2008  show(XlinkParams self, _ostream s=std::cout)
2009  show(XlinkParams self)
2010  """
2011  return _IMP_multifit.XlinkParams_show(self, *args)
2012 
2013  __swig_setmethods__["upper_bound_"] = _IMP_multifit.XlinkParams_upper_bound__set
2014  __swig_getmethods__["upper_bound_"] = _IMP_multifit.XlinkParams_upper_bound__get
2015  if _newclass:upper_bound_ = _swig_property(_IMP_multifit.XlinkParams_upper_bound__get, _IMP_multifit.XlinkParams_upper_bound__set)
2016  __swig_setmethods__["k_"] = _IMP_multifit.XlinkParams_k__set
2017  __swig_getmethods__["k_"] = _IMP_multifit.XlinkParams_k__get
2018  if _newclass:k_ = _swig_property(_IMP_multifit.XlinkParams_k__get, _IMP_multifit.XlinkParams_k__set)
2019  __swig_setmethods__["max_xlink_val_"] = _IMP_multifit.XlinkParams_max_xlink_val__set
2020  __swig_getmethods__["max_xlink_val_"] = _IMP_multifit.XlinkParams_max_xlink_val__get
2021  if _newclass:max_xlink_val_ = _swig_property(_IMP_multifit.XlinkParams_max_xlink_val__get, _IMP_multifit.XlinkParams_max_xlink_val__set)
2022  __swig_setmethods__["treat_between_residues_"] = _IMP_multifit.XlinkParams_treat_between_residues__set
2023  __swig_getmethods__["treat_between_residues_"] = _IMP_multifit.XlinkParams_treat_between_residues__get
2024  if _newclass:treat_between_residues_ = _swig_property(_IMP_multifit.XlinkParams_treat_between_residues__get, _IMP_multifit.XlinkParams_treat_between_residues__set)
2025  def __str__(self):
2026  """__str__(XlinkParams self) -> std::string"""
2027  return _IMP_multifit.XlinkParams___str__(self)
2028 
2029  def __repr__(self):
2030  """__repr__(XlinkParams self) -> std::string"""
2031  return _IMP_multifit.XlinkParams___repr__(self)
2032 
2033  __swig_destroy__ = _IMP_multifit.delete_XlinkParams
2034  __del__ = lambda self : None;
2035 XlinkParams_swigregister = _IMP_multifit.XlinkParams_swigregister
2036 XlinkParams_swigregister(XlinkParams)
2037 
2038 class ConnectivityParams(_object):
2039  """Proxy of C++ IMP::multifit::ConnectivityParams class"""
2040  __swig_setmethods__ = {}
2041  __setattr__ = lambda self, name, value: _swig_setattr(self, ConnectivityParams, name, value)
2042  __swig_getmethods__ = {}
2043  __getattr__ = lambda self, name: _swig_getattr(self, ConnectivityParams, name)
2044  def __init__(self):
2045  """__init__(IMP::multifit::ConnectivityParams self) -> ConnectivityParams"""
2046  this = _IMP_multifit.new_ConnectivityParams()
2047  try: self.this.append(this)
2048  except: self.this = this
2049  def add(self, *args):
2050  """add(ConnectivityParams self, boost::property_tree::ptree const & pt)"""
2051  return _IMP_multifit.ConnectivityParams_add(self, *args)
2052 
2053  def show(self, *args):
2054  """
2055  show(ConnectivityParams self, _ostream s=std::cout)
2056  show(ConnectivityParams self)
2057  """
2058  return _IMP_multifit.ConnectivityParams_show(self, *args)
2059 
2060  __swig_setmethods__["upper_bound_"] = _IMP_multifit.ConnectivityParams_upper_bound__set
2061  __swig_getmethods__["upper_bound_"] = _IMP_multifit.ConnectivityParams_upper_bound__get
2062  if _newclass:upper_bound_ = _swig_property(_IMP_multifit.ConnectivityParams_upper_bound__get, _IMP_multifit.ConnectivityParams_upper_bound__set)
2063  __swig_setmethods__["k_"] = _IMP_multifit.ConnectivityParams_k__set
2064  __swig_getmethods__["k_"] = _IMP_multifit.ConnectivityParams_k__get
2065  if _newclass:k_ = _swig_property(_IMP_multifit.ConnectivityParams_k__get, _IMP_multifit.ConnectivityParams_k__set)
2066  __swig_setmethods__["max_conn_rest_val_"] = _IMP_multifit.ConnectivityParams_max_conn_rest_val__set
2067  __swig_getmethods__["max_conn_rest_val_"] = _IMP_multifit.ConnectivityParams_max_conn_rest_val__get
2068  if _newclass:max_conn_rest_val_ = _swig_property(_IMP_multifit.ConnectivityParams_max_conn_rest_val__get, _IMP_multifit.ConnectivityParams_max_conn_rest_val__set)
2069  def __str__(self):
2070  """__str__(ConnectivityParams self) -> std::string"""
2071  return _IMP_multifit.ConnectivityParams___str__(self)
2072 
2073  def __repr__(self):
2074  """__repr__(ConnectivityParams self) -> std::string"""
2075  return _IMP_multifit.ConnectivityParams___repr__(self)
2076 
2077  __swig_destroy__ = _IMP_multifit.delete_ConnectivityParams
2078  __del__ = lambda self : None;
2079 ConnectivityParams_swigregister = _IMP_multifit.ConnectivityParams_swigregister
2080 ConnectivityParams_swigregister(ConnectivityParams)
2081 
2082 class FragmentsParams(_object):
2083  """Proxy of C++ IMP::multifit::FragmentsParams class"""
2084  __swig_setmethods__ = {}
2085  __setattr__ = lambda self, name, value: _swig_setattr(self, FragmentsParams, name, value)
2086  __swig_getmethods__ = {}
2087  __getattr__ = lambda self, name: _swig_getattr(self, FragmentsParams, name)
2088  def __init__(self):
2089  """__init__(IMP::multifit::FragmentsParams self) -> FragmentsParams"""
2090  this = _IMP_multifit.new_FragmentsParams()
2091  try: self.this.append(this)
2092  except: self.this = this
2093  def add(self, *args):
2094  """add(FragmentsParams self, boost::property_tree::ptree const & pt)"""
2095  return _IMP_multifit.FragmentsParams_add(self, *args)
2096 
2097  def show(self, *args):
2098  """
2099  show(FragmentsParams self, _ostream s=std::cout)
2100  show(FragmentsParams self)
2101  """
2102  return _IMP_multifit.FragmentsParams_show(self, *args)
2103 
2104  __swig_setmethods__["frag_len_"] = _IMP_multifit.FragmentsParams_frag_len__set
2105  __swig_getmethods__["frag_len_"] = _IMP_multifit.FragmentsParams_frag_len__get
2106  if _newclass:frag_len_ = _swig_property(_IMP_multifit.FragmentsParams_frag_len__get, _IMP_multifit.FragmentsParams_frag_len__set)
2107  __swig_setmethods__["bead_radius_scale_"] = _IMP_multifit.FragmentsParams_bead_radius_scale__set
2108  __swig_getmethods__["bead_radius_scale_"] = _IMP_multifit.FragmentsParams_bead_radius_scale__get
2109  if _newclass:bead_radius_scale_ = _swig_property(_IMP_multifit.FragmentsParams_bead_radius_scale__get, _IMP_multifit.FragmentsParams_bead_radius_scale__set)
2110  __swig_setmethods__["load_atomic_"] = _IMP_multifit.FragmentsParams_load_atomic__set
2111  __swig_getmethods__["load_atomic_"] = _IMP_multifit.FragmentsParams_load_atomic__get
2112  if _newclass:load_atomic_ = _swig_property(_IMP_multifit.FragmentsParams_load_atomic__get, _IMP_multifit.FragmentsParams_load_atomic__set)
2113  __swig_setmethods__["subunit_rigid_"] = _IMP_multifit.FragmentsParams_subunit_rigid__set
2114  __swig_getmethods__["subunit_rigid_"] = _IMP_multifit.FragmentsParams_subunit_rigid__get
2115  if _newclass:subunit_rigid_ = _swig_property(_IMP_multifit.FragmentsParams_subunit_rigid__get, _IMP_multifit.FragmentsParams_subunit_rigid__set)
2116  def __str__(self):
2117  """__str__(FragmentsParams self) -> std::string"""
2118  return _IMP_multifit.FragmentsParams___str__(self)
2119 
2120  def __repr__(self):
2121  """__repr__(FragmentsParams self) -> std::string"""
2122  return _IMP_multifit.FragmentsParams___repr__(self)
2123 
2124  __swig_destroy__ = _IMP_multifit.delete_FragmentsParams
2125  __del__ = lambda self : None;
2126 FragmentsParams_swigregister = _IMP_multifit.FragmentsParams_swigregister
2127 FragmentsParams_swigregister(FragmentsParams)
2128 
2129 class RogParams(_object):
2130  """Proxy of C++ IMP::multifit::RogParams class"""
2131  __swig_setmethods__ = {}
2132  __setattr__ = lambda self, name, value: _swig_setattr(self, RogParams, name, value)
2133  __swig_getmethods__ = {}
2134  __getattr__ = lambda self, name: _swig_getattr(self, RogParams, name)
2135  def __init__(self):
2136  """__init__(IMP::multifit::RogParams self) -> RogParams"""
2137  this = _IMP_multifit.new_RogParams()
2138  try: self.this.append(this)
2139  except: self.this = this
2140  def add(self, *args):
2141  """add(RogParams self, boost::property_tree::ptree const & pt)"""
2142  return _IMP_multifit.RogParams_add(self, *args)
2143 
2144  def get_max_score(self):
2145  """get_max_score(RogParams self) -> float"""
2146  return _IMP_multifit.RogParams_get_max_score(self)
2147 
2148  def get_scale(self):
2149  """get_scale(RogParams self) -> float"""
2150  return _IMP_multifit.RogParams_get_scale(self)
2151 
2152  def show(self, *args):
2153  """
2154  show(RogParams self, _ostream s=std::cout)
2155  show(RogParams self)
2156  """
2157  return _IMP_multifit.RogParams_show(self, *args)
2158 
2159  def __str__(self):
2160  """__str__(RogParams self) -> std::string"""
2161  return _IMP_multifit.RogParams___str__(self)
2162 
2163  def __repr__(self):
2164  """__repr__(RogParams self) -> std::string"""
2165  return _IMP_multifit.RogParams___repr__(self)
2166 
2167  __swig_destroy__ = _IMP_multifit.delete_RogParams
2168  __del__ = lambda self : None;
2169 RogParams_swigregister = _IMP_multifit.RogParams_swigregister
2170 RogParams_swigregister(RogParams)
2171 
2172 class EVParams(_object):
2173  """Proxy of C++ IMP::multifit::EVParams class"""
2174  __swig_setmethods__ = {}
2175  __setattr__ = lambda self, name, value: _swig_setattr(self, EVParams, name, value)
2176  __swig_getmethods__ = {}
2177  __getattr__ = lambda self, name: _swig_getattr(self, EVParams, name)
2178  def __init__(self):
2179  """__init__(IMP::multifit::EVParams self) -> EVParams"""
2180  this = _IMP_multifit.new_EVParams()
2181  try: self.this.append(this)
2182  except: self.this = this
2183  def add(self, *args):
2184  """add(EVParams self, boost::property_tree::ptree const & pt)"""
2185  return _IMP_multifit.EVParams_add(self, *args)
2186 
2187  def show(self, *args):
2188  """
2189  show(EVParams self, _ostream s=std::cout)
2190  show(EVParams self)
2191  """
2192  return _IMP_multifit.EVParams_show(self, *args)
2193 
2194  __swig_setmethods__["pair_distance_"] = _IMP_multifit.EVParams_pair_distance__set
2195  __swig_getmethods__["pair_distance_"] = _IMP_multifit.EVParams_pair_distance__get
2196  if _newclass:pair_distance_ = _swig_property(_IMP_multifit.EVParams_pair_distance__get, _IMP_multifit.EVParams_pair_distance__set)
2197  __swig_setmethods__["pair_slack_"] = _IMP_multifit.EVParams_pair_slack__set
2198  __swig_getmethods__["pair_slack_"] = _IMP_multifit.EVParams_pair_slack__get
2199  if _newclass:pair_slack_ = _swig_property(_IMP_multifit.EVParams_pair_slack__get, _IMP_multifit.EVParams_pair_slack__set)
2200  __swig_setmethods__["hlb_mean_"] = _IMP_multifit.EVParams_hlb_mean__set
2201  __swig_getmethods__["hlb_mean_"] = _IMP_multifit.EVParams_hlb_mean__get
2202  if _newclass:hlb_mean_ = _swig_property(_IMP_multifit.EVParams_hlb_mean__get, _IMP_multifit.EVParams_hlb_mean__set)
2203  __swig_setmethods__["hlb_k_"] = _IMP_multifit.EVParams_hlb_k__set
2204  __swig_getmethods__["hlb_k_"] = _IMP_multifit.EVParams_hlb_k__get
2205  if _newclass:hlb_k_ = _swig_property(_IMP_multifit.EVParams_hlb_k__get, _IMP_multifit.EVParams_hlb_k__set)
2206  __swig_setmethods__["maximum_ev_score_for_pair_"] = _IMP_multifit.EVParams_maximum_ev_score_for_pair__set
2207  __swig_getmethods__["maximum_ev_score_for_pair_"] = _IMP_multifit.EVParams_maximum_ev_score_for_pair__get
2208  if _newclass:maximum_ev_score_for_pair_ = _swig_property(_IMP_multifit.EVParams_maximum_ev_score_for_pair__get, _IMP_multifit.EVParams_maximum_ev_score_for_pair__set)
2209  __swig_setmethods__["allowed_percentage_of_bad_pairs_"] = _IMP_multifit.EVParams_allowed_percentage_of_bad_pairs__set
2210  __swig_getmethods__["allowed_percentage_of_bad_pairs_"] = _IMP_multifit.EVParams_allowed_percentage_of_bad_pairs__get
2211  if _newclass:allowed_percentage_of_bad_pairs_ = _swig_property(_IMP_multifit.EVParams_allowed_percentage_of_bad_pairs__get, _IMP_multifit.EVParams_allowed_percentage_of_bad_pairs__set)
2212  __swig_setmethods__["scoring_mode_"] = _IMP_multifit.EVParams_scoring_mode__set
2213  __swig_getmethods__["scoring_mode_"] = _IMP_multifit.EVParams_scoring_mode__get
2214  if _newclass:scoring_mode_ = _swig_property(_IMP_multifit.EVParams_scoring_mode__get, _IMP_multifit.EVParams_scoring_mode__set)
2215  def __str__(self):
2216  """__str__(EVParams self) -> std::string"""
2217  return _IMP_multifit.EVParams___str__(self)
2218 
2219  def __repr__(self):
2220  """__repr__(EVParams self) -> std::string"""
2221  return _IMP_multifit.EVParams___repr__(self)
2222 
2223  __swig_destroy__ = _IMP_multifit.delete_EVParams
2224  __del__ = lambda self : None;
2225 EVParams_swigregister = _IMP_multifit.EVParams_swigregister
2226 EVParams_swigregister(EVParams)
2227 
2228 class FiltersParams(_object):
2229  """Proxy of C++ IMP::multifit::FiltersParams class"""
2230  __swig_setmethods__ = {}
2231  __setattr__ = lambda self, name, value: _swig_setattr(self, FiltersParams, name, value)
2232  __swig_getmethods__ = {}
2233  __getattr__ = lambda self, name: _swig_getattr(self, FiltersParams, name)
2234  def __init__(self):
2235  """__init__(IMP::multifit::FiltersParams self) -> FiltersParams"""
2236  this = _IMP_multifit.new_FiltersParams()
2237  try: self.this.append(this)
2238  except: self.this = this
2239  def add(self, *args):
2240  """add(FiltersParams self, boost::property_tree::ptree const & pt)"""
2241  return _IMP_multifit.FiltersParams_add(self, *args)
2242 
2243  def show(self, *args):
2244  """
2245  show(FiltersParams self, _ostream s=std::cout)
2246  show(FiltersParams self)
2247  """
2248  return _IMP_multifit.FiltersParams_show(self, *args)
2249 
2250  __swig_setmethods__["max_num_violated_xlink_"] = _IMP_multifit.FiltersParams_max_num_violated_xlink__set
2251  __swig_getmethods__["max_num_violated_xlink_"] = _IMP_multifit.FiltersParams_max_num_violated_xlink__get
2252  if _newclass:max_num_violated_xlink_ = _swig_property(_IMP_multifit.FiltersParams_max_num_violated_xlink__get, _IMP_multifit.FiltersParams_max_num_violated_xlink__set)
2253  __swig_setmethods__["max_num_violated_conn_"] = _IMP_multifit.FiltersParams_max_num_violated_conn__set
2254  __swig_getmethods__["max_num_violated_conn_"] = _IMP_multifit.FiltersParams_max_num_violated_conn__get
2255  if _newclass:max_num_violated_conn_ = _swig_property(_IMP_multifit.FiltersParams_max_num_violated_conn__get, _IMP_multifit.FiltersParams_max_num_violated_conn__set)
2256  __swig_setmethods__["max_num_violated_ev_"] = _IMP_multifit.FiltersParams_max_num_violated_ev__set
2257  __swig_getmethods__["max_num_violated_ev_"] = _IMP_multifit.FiltersParams_max_num_violated_ev__get
2258  if _newclass:max_num_violated_ev_ = _swig_property(_IMP_multifit.FiltersParams_max_num_violated_ev__get, _IMP_multifit.FiltersParams_max_num_violated_ev__set)
2259  def __str__(self):
2260  """__str__(FiltersParams self) -> std::string"""
2261  return _IMP_multifit.FiltersParams___str__(self)
2262 
2263  def __repr__(self):
2264  """__repr__(FiltersParams self) -> std::string"""
2265  return _IMP_multifit.FiltersParams___repr__(self)
2266 
2267  __swig_destroy__ = _IMP_multifit.delete_FiltersParams
2268  __del__ = lambda self : None;
2269 FiltersParams_swigregister = _IMP_multifit.FiltersParams_swigregister
2270 FiltersParams_swigregister(FiltersParams)
2271 
2272 class FittingParams(_object):
2273  """Proxy of C++ IMP::multifit::FittingParams class"""
2274  __swig_setmethods__ = {}
2275  __setattr__ = lambda self, name, value: _swig_setattr(self, FittingParams, name, value)
2276  __swig_getmethods__ = {}
2277  __getattr__ = lambda self, name: _swig_getattr(self, FittingParams, name)
2278  def __init__(self):
2279  """__init__(IMP::multifit::FittingParams self) -> FittingParams"""
2280  this = _IMP_multifit.new_FittingParams()
2281  try: self.this.append(this)
2282  except: self.this = this
2283  def add(self, *args):
2284  """add(FittingParams self, boost::property_tree::ptree const & pt)"""
2285  return _IMP_multifit.FittingParams_add(self, *args)
2286 
2287  def show(self, *args):
2288  """
2289  show(FittingParams self, _ostream s=std::cout)
2290  show(FittingParams self)
2291  """
2292  return _IMP_multifit.FittingParams_show(self, *args)
2293 
2294  __swig_setmethods__["pca_max_angle_diff_"] = _IMP_multifit.FittingParams_pca_max_angle_diff__set
2295  __swig_getmethods__["pca_max_angle_diff_"] = _IMP_multifit.FittingParams_pca_max_angle_diff__get
2296  if _newclass:pca_max_angle_diff_ = _swig_property(_IMP_multifit.FittingParams_pca_max_angle_diff__get, _IMP_multifit.FittingParams_pca_max_angle_diff__set)
2297  __swig_setmethods__["pca_max_size_diff_"] = _IMP_multifit.FittingParams_pca_max_size_diff__set
2298  __swig_getmethods__["pca_max_size_diff_"] = _IMP_multifit.FittingParams_pca_max_size_diff__get
2299  if _newclass:pca_max_size_diff_ = _swig_property(_IMP_multifit.FittingParams_pca_max_size_diff__get, _IMP_multifit.FittingParams_pca_max_size_diff__set)
2300  __swig_setmethods__["pca_max_cent_dist_diff_"] = _IMP_multifit.FittingParams_pca_max_cent_dist_diff__set
2301  __swig_getmethods__["pca_max_cent_dist_diff_"] = _IMP_multifit.FittingParams_pca_max_cent_dist_diff__get
2302  if _newclass:pca_max_cent_dist_diff_ = _swig_property(_IMP_multifit.FittingParams_pca_max_cent_dist_diff__get, _IMP_multifit.FittingParams_pca_max_cent_dist_diff__set)
2303  __swig_setmethods__["max_asmb_fit_score_"] = _IMP_multifit.FittingParams_max_asmb_fit_score__set
2304  __swig_getmethods__["max_asmb_fit_score_"] = _IMP_multifit.FittingParams_max_asmb_fit_score__get
2305  if _newclass:max_asmb_fit_score_ = _swig_property(_IMP_multifit.FittingParams_max_asmb_fit_score__get, _IMP_multifit.FittingParams_max_asmb_fit_score__set)
2306  def __str__(self):
2307  """__str__(FittingParams self) -> std::string"""
2308  return _IMP_multifit.FittingParams___str__(self)
2309 
2310  def __repr__(self):
2311  """__repr__(FittingParams self) -> std::string"""
2312  return _IMP_multifit.FittingParams___repr__(self)
2313 
2314  __swig_destroy__ = _IMP_multifit.delete_FittingParams
2315  __del__ = lambda self : None;
2316 FittingParams_swigregister = _IMP_multifit.FittingParams_swigregister
2317 FittingParams_swigregister(FittingParams)
2318 
2319 class ComplementarityParams(_object):
2320  """Proxy of C++ IMP::multifit::ComplementarityParams class"""
2321  __swig_setmethods__ = {}
2322  __setattr__ = lambda self, name, value: _swig_setattr(self, ComplementarityParams, name, value)
2323  __swig_getmethods__ = {}
2324  __getattr__ = lambda self, name: _swig_getattr(self, ComplementarityParams, name)
2325  def __init__(self):
2326  """__init__(IMP::multifit::ComplementarityParams self) -> ComplementarityParams"""
2327  this = _IMP_multifit.new_ComplementarityParams()
2328  try: self.this.append(this)
2329  except: self.this = this
2330  def add(self, *args):
2331  """add(ComplementarityParams self, boost::property_tree::ptree const & pt)"""
2332  return _IMP_multifit.ComplementarityParams_add(self, *args)
2333 
2334  def show(self, *args):
2335  """
2336  show(ComplementarityParams self, _ostream s=std::cout)
2337  show(ComplementarityParams self)
2338  """
2339  return _IMP_multifit.ComplementarityParams_show(self, *args)
2340 
2341  __swig_setmethods__["max_score_"] = _IMP_multifit.ComplementarityParams_max_score__set
2342  __swig_getmethods__["max_score_"] = _IMP_multifit.ComplementarityParams_max_score__get
2343  if _newclass:max_score_ = _swig_property(_IMP_multifit.ComplementarityParams_max_score__get, _IMP_multifit.ComplementarityParams_max_score__set)
2344  __swig_setmethods__["max_penetration_"] = _IMP_multifit.ComplementarityParams_max_penetration__set
2345  __swig_getmethods__["max_penetration_"] = _IMP_multifit.ComplementarityParams_max_penetration__get
2346  if _newclass:max_penetration_ = _swig_property(_IMP_multifit.ComplementarityParams_max_penetration__get, _IMP_multifit.ComplementarityParams_max_penetration__set)
2347  __swig_setmethods__["interior_layer_thickness_"] = _IMP_multifit.ComplementarityParams_interior_layer_thickness__set
2348  __swig_getmethods__["interior_layer_thickness_"] = _IMP_multifit.ComplementarityParams_interior_layer_thickness__get
2349  if _newclass:interior_layer_thickness_ = _swig_property(_IMP_multifit.ComplementarityParams_interior_layer_thickness__get, _IMP_multifit.ComplementarityParams_interior_layer_thickness__set)
2350  __swig_setmethods__["boundary_coef_"] = _IMP_multifit.ComplementarityParams_boundary_coef__set
2351  __swig_getmethods__["boundary_coef_"] = _IMP_multifit.ComplementarityParams_boundary_coef__get
2352  if _newclass:boundary_coef_ = _swig_property(_IMP_multifit.ComplementarityParams_boundary_coef__get, _IMP_multifit.ComplementarityParams_boundary_coef__set)
2353  __swig_setmethods__["comp_coef_"] = _IMP_multifit.ComplementarityParams_comp_coef__set
2354  __swig_getmethods__["comp_coef_"] = _IMP_multifit.ComplementarityParams_comp_coef__get
2355  if _newclass:comp_coef_ = _swig_property(_IMP_multifit.ComplementarityParams_comp_coef__get, _IMP_multifit.ComplementarityParams_comp_coef__set)
2356  __swig_setmethods__["penetration_coef_"] = _IMP_multifit.ComplementarityParams_penetration_coef__set
2357  __swig_getmethods__["penetration_coef_"] = _IMP_multifit.ComplementarityParams_penetration_coef__get
2358  if _newclass:penetration_coef_ = _swig_property(_IMP_multifit.ComplementarityParams_penetration_coef__get, _IMP_multifit.ComplementarityParams_penetration_coef__set)
2359  def __str__(self):
2360  """__str__(ComplementarityParams self) -> std::string"""
2361  return _IMP_multifit.ComplementarityParams___str__(self)
2362 
2363  def __repr__(self):
2364  """__repr__(ComplementarityParams self) -> std::string"""
2365  return _IMP_multifit.ComplementarityParams___repr__(self)
2366 
2367  __swig_destroy__ = _IMP_multifit.delete_ComplementarityParams
2368  __del__ = lambda self : None;
2369 ComplementarityParams_swigregister = _IMP_multifit.ComplementarityParams_swigregister
2370 ComplementarityParams_swigregister(ComplementarityParams)
2371 
2372 class AlignmentParams(_object):
2373  """Proxy of C++ IMP::multifit::AlignmentParams class"""
2374  __swig_setmethods__ = {}
2375  __setattr__ = lambda self, name, value: _swig_setattr(self, AlignmentParams, name, value)
2376  __swig_getmethods__ = {}
2377  __getattr__ = lambda self, name: _swig_getattr(self, AlignmentParams, name)
2378  def __init__(self, *args):
2379  """__init__(IMP::multifit::AlignmentParams self, char const * param_filename) -> AlignmentParams"""
2380  this = _IMP_multifit.new_AlignmentParams(*args)
2381  try: self.this.append(this)
2382  except: self.this = this
2383  def get_domino_params(self):
2384  """get_domino_params(AlignmentParams self) -> DominoParams"""
2385  return _IMP_multifit.AlignmentParams_get_domino_params(self)
2386 
2387  def get_fitting_params(self):
2388  """get_fitting_params(AlignmentParams self) -> FittingParams"""
2389  return _IMP_multifit.AlignmentParams_get_fitting_params(self)
2390 
2391  def get_complementarity_params(self):
2392  """get_complementarity_params(AlignmentParams self) -> ComplementarityParams"""
2393  return _IMP_multifit.AlignmentParams_get_complementarity_params(self)
2394 
2395  def get_xlink_params(self):
2396  """get_xlink_params(AlignmentParams self) -> XlinkParams"""
2397  return _IMP_multifit.AlignmentParams_get_xlink_params(self)
2398 
2399  def get_connectivity_params(self):
2400  """get_connectivity_params(AlignmentParams self) -> ConnectivityParams"""
2401  return _IMP_multifit.AlignmentParams_get_connectivity_params(self)
2402 
2403  def get_rog_params(self):
2404  """get_rog_params(AlignmentParams self) -> RogParams"""
2405  return _IMP_multifit.AlignmentParams_get_rog_params(self)
2406 
2407  def get_fragments_params(self):
2408  """get_fragments_params(AlignmentParams self) -> FragmentsParams"""
2409  return _IMP_multifit.AlignmentParams_get_fragments_params(self)
2410 
2411  def get_filters_params(self):
2412  """get_filters_params(AlignmentParams self) -> FiltersParams"""
2413  return _IMP_multifit.AlignmentParams_get_filters_params(self)
2414 
2415  def get_ev_params(self):
2416  """get_ev_params(AlignmentParams self) -> EVParams"""
2417  return _IMP_multifit.AlignmentParams_get_ev_params(self)
2418 
2419  def show(self, *args):
2420  """
2421  show(AlignmentParams self, _ostream s=std::cout)
2422  show(AlignmentParams self)
2423  """
2424  return _IMP_multifit.AlignmentParams_show(self, *args)
2425 
2426  def __str__(self):
2427  """__str__(AlignmentParams self) -> std::string"""
2428  return _IMP_multifit.AlignmentParams___str__(self)
2429 
2430  def __repr__(self):
2431  """__repr__(AlignmentParams self) -> std::string"""
2432  return _IMP_multifit.AlignmentParams___repr__(self)
2433 
2434  __swig_destroy__ = _IMP_multifit.delete_AlignmentParams
2435  __del__ = lambda self : None;
2436 AlignmentParams_swigregister = _IMP_multifit.AlignmentParams_swigregister
2437 AlignmentParams_swigregister(AlignmentParams)
2438 
2439 class ProteomicsEMAlignmentAtomic(IMP.base.Object):
2440  """Proxy of C++ IMP::multifit::ProteomicsEMAlignmentAtomic class"""
2441  __swig_setmethods__ = {}
2442  for _s in [IMP.base.Object]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
2443  __setattr__ = lambda self, name, value: _swig_setattr(self, ProteomicsEMAlignmentAtomic, name, value)
2444  __swig_getmethods__ = {}
2445  for _s in [IMP.base.Object]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
2446  __getattr__ = lambda self, name: _swig_getattr(self, ProteomicsEMAlignmentAtomic, name)
2447  def __init__(self, *args):
2448  """__init__(IMP::multifit::ProteomicsEMAlignmentAtomic self, ProteinsAnchorsSamplingSpace mapping_data, SettingsData asmb_data, AlignmentParams align_param) -> ProteomicsEMAlignmentAtomic"""
2449  this = _IMP_multifit.new_ProteomicsEMAlignmentAtomic(*args)
2450  try: self.this.append(this)
2451  except: self.this = this
2452  def align(self):
2453  """align(ProteomicsEMAlignmentAtomic self)"""
2454  return _IMP_multifit.ProteomicsEMAlignmentAtomic_align(self)
2455 
2456  def add_all_restraints(self):
2457  """add_all_restraints(ProteomicsEMAlignmentAtomic self)"""
2458  return _IMP_multifit.ProteomicsEMAlignmentAtomic_add_all_restraints(self)
2459 
2460  def add_states_and_filters(self):
2461  """add_states_and_filters(ProteomicsEMAlignmentAtomic self)"""
2462  return _IMP_multifit.ProteomicsEMAlignmentAtomic_add_states_and_filters(self)
2463 
2464  def show_domino_merge_tree(self):
2465  """show_domino_merge_tree(ProteomicsEMAlignmentAtomic self)"""
2466  return _IMP_multifit.ProteomicsEMAlignmentAtomic_show_domino_merge_tree(self)
2467 
2468  def get_combinations(self, uniques=False):
2469  """
2470  get_combinations(ProteomicsEMAlignmentAtomic self, bool uniques=False) -> IMP::domino::Assignments
2471  get_combinations(ProteomicsEMAlignmentAtomic self) -> IMP::domino::Assignments
2472  """
2473  return _IMP_multifit.ProteomicsEMAlignmentAtomic_get_combinations(self, uniques)
2474 
2475  def set_density_map(self, *args):
2476  """set_density_map(ProteomicsEMAlignmentAtomic self, DensityMap dmap, float threshold)"""
2477  return _IMP_multifit.ProteomicsEMAlignmentAtomic_set_density_map(self, *args)
2478 
2479  def get_molecules(self):
2480  """get_molecules(ProteomicsEMAlignmentAtomic self) -> IMP::atom::Hierarchies"""
2481  return _IMP_multifit.ProteomicsEMAlignmentAtomic_get_molecules(self)
2482 
2483  def get_rigid_bodies(self):
2484  """get_rigid_bodies(ProteomicsEMAlignmentAtomic self) -> IMP::core::RigidBodies"""
2485  return _IMP_multifit.ProteomicsEMAlignmentAtomic_get_rigid_bodies(self)
2486 
2487  def load_combination_of_states(self, *args):
2488  """load_combination_of_states(ProteomicsEMAlignmentAtomic self, IMP::Ints const & state4particles)"""
2489  return _IMP_multifit.ProteomicsEMAlignmentAtomic_load_combination_of_states(self, *args)
2490 
2491  def show_scores_header(self, *args):
2492  """
2493  show_scores_header(ProteomicsEMAlignmentAtomic self, _ostream ous=std::cout)
2494  show_scores_header(ProteomicsEMAlignmentAtomic self)
2495  """
2496  return _IMP_multifit.ProteomicsEMAlignmentAtomic_show_scores_header(self, *args)
2497 
2498  def get_model(self):
2499  """get_model(ProteomicsEMAlignmentAtomic self) -> Model"""
2500  return _IMP_multifit.ProteomicsEMAlignmentAtomic_get_model(self)
2501 
2502  def set_fast_scoring(self, *args):
2503  """set_fast_scoring(ProteomicsEMAlignmentAtomic self, bool state)"""
2504  return _IMP_multifit.ProteomicsEMAlignmentAtomic_set_fast_scoring(self, *args)
2505 
2506  def get_version_info(self):
2507  """get_version_info(ProteomicsEMAlignmentAtomic self) -> VersionInfo"""
2508  return _IMP_multifit.ProteomicsEMAlignmentAtomic_get_version_info(self)
2509 
2510  __swig_destroy__ = _IMP_multifit.delete_ProteomicsEMAlignmentAtomic
2511  __del__ = lambda self : None;
2512  def __str__(self):
2513  """__str__(ProteomicsEMAlignmentAtomic self) -> std::string"""
2514  return _IMP_multifit.ProteomicsEMAlignmentAtomic___str__(self)
2515 
2516  def __repr__(self):
2517  """__repr__(ProteomicsEMAlignmentAtomic self) -> std::string"""
2518  return _IMP_multifit.ProteomicsEMAlignmentAtomic___repr__(self)
2519 
2520  def get_from(o):
2521  return _object_cast_to_ProteomicsEMAlignmentAtomic(o)
2522  get_from = staticmethod(get_from)
2523 
2524 ProteomicsEMAlignmentAtomic_swigregister = _IMP_multifit.ProteomicsEMAlignmentAtomic_swigregister
2525 ProteomicsEMAlignmentAtomic_swigregister(ProteomicsEMAlignmentAtomic)
2526 
2527 
2528 def write_connolly_surface(*args):
2529  """write_connolly_surface(IMP::atom::Atoms as, TextOutput fn, float density, float probe_radius)"""
2530  return _IMP_multifit.write_connolly_surface(*args)
2531 class Ensemble(IMP.base.Object):
2532  """Proxy of C++ IMP::multifit::Ensemble class"""
2533  __swig_setmethods__ = {}
2534  for _s in [IMP.base.Object]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
2535  __setattr__ = lambda self, name, value: _swig_setattr(self, Ensemble, name, value)
2536  __swig_getmethods__ = {}
2537  for _s in [IMP.base.Object]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
2538  __getattr__ = lambda self, name: _swig_getattr(self, Ensemble, name)
2539  def load_combination(self, *args):
2540  """load_combination(Ensemble self, IMP::Ints fit_comb)"""
2541  return _IMP_multifit.Ensemble_load_combination(self, *args)
2542 
2543  def unload_combination(self, *args):
2544  """unload_combination(Ensemble self, IMP::Ints fit_comb)"""
2545  return _IMP_multifit.Ensemble_unload_combination(self, *args)
2546 
2547  def add_component_and_fits(self, *args):
2548  """add_component_and_fits(Ensemble self, Hierarchy mh, IMP::multifit::FittingSolutionRecords const & fits)"""
2549  return _IMP_multifit.Ensemble_add_component_and_fits(self, *args)
2550 
2551  def get_molecules(self):
2552  """get_molecules(Ensemble self) -> IMP::atom::Hierarchies"""
2553  return _IMP_multifit.Ensemble_get_molecules(self)
2554 
2555  def get_rigid_bodies(self):
2556  """get_rigid_bodies(Ensemble self) -> IMP::core::RigidBodies"""
2557  return _IMP_multifit.Ensemble_get_rigid_bodies(self)
2558 
2559  def get_rmsd(self, *args):
2560  """get_rmsd(Ensemble self, IMP::core::XYZs const & second_xyz) -> float"""
2561  return _IMP_multifit.Ensemble_get_rmsd(self, *args)
2562 
2563  def __init__(self, *args):
2564  """__init__(IMP::multifit::Ensemble self, SettingsData sd, ProteinsAnchorsSamplingSpace mapping_data) -> Ensemble"""
2565  this = _IMP_multifit.new_Ensemble(*args)
2566  try: self.this.append(this)
2567  except: self.this = this
2568  def score_by_restraints(self, *args):
2569  """score_by_restraints(Ensemble self, IMP::kernel::Restraints rs, IMP::IntsList const & combinations) -> std::vector< IMP::Floats,std::allocator< IMP::Floats > >"""
2570  return _IMP_multifit.Ensemble_score_by_restraints(self, *args)
2571 
2572  def get_version_info(self):
2573  """get_version_info(Ensemble self) -> VersionInfo"""
2574  return _IMP_multifit.Ensemble_get_version_info(self)
2575 
2576  __swig_destroy__ = _IMP_multifit.delete_Ensemble
2577  __del__ = lambda self : None;
2578  def __str__(self):
2579  """__str__(Ensemble self) -> std::string"""
2580  return _IMP_multifit.Ensemble___str__(self)
2581 
2582  def __repr__(self):
2583  """__repr__(Ensemble self) -> std::string"""
2584  return _IMP_multifit.Ensemble___repr__(self)
2585 
2586  def get_from(o):
2587  return _object_cast_to_Ensemble(o)
2588  get_from = staticmethod(get_from)
2589 
2590 Ensemble_swigregister = _IMP_multifit.Ensemble_swigregister
2591 Ensemble_swigregister(Ensemble)
2592 
2593 
2594 def load_ensemble(*args):
2595  """load_ensemble(SettingsData sd, Model mdl, ProteinsAnchorsSamplingSpace mapping_data) -> Ensemble"""
2596  return _IMP_multifit.load_ensemble(*args)
2597 _all_commands = ["param", "anchors", "fit_fft", "cluster", "add_fit_rmsd",
2598  "indexes", "proteomics", "align", "models", "transforms",
2599  "score", "merge_tree", "reference", "refine_fft", "segment"]
2600 
2601 
2602 def get_module_version():
2603  """get_module_version() -> std::string const"""
2604  return _IMP_multifit.get_module_version()
2605 
2606 def get_example_path(*args):
2607  """get_example_path(std::string fname) -> std::string"""
2608  return _IMP_multifit.get_example_path(*args)
2609 
2610 def get_data_path(*args):
2611  """get_data_path(std::string fname) -> std::string"""
2612  return _IMP_multifit.get_data_path(*args)
2613 import _version_check
2614 _version_check.check_version(get_module_version())
2615 
2616 # This file is compatible with both classic and new-style classes.
2617 
2618 
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.
Ints get_index(const kernel::ParticlesTemp &particles, const Subset &subset, const Subsets &excluded)
std::string get_example_path(std::string file_name)
Return the path to installed example data for this module.
atom::Hierarchy create_coarse_molecule_from_density(em::DensityMap *dmap, float dens_threshold, int num_beads, kernel::Model *mdl, float bead_radius)
Coarsen a density map based on voxels clustering.
IntsList get_connected_components(em::DensityMap *dmap, float threshold, float edge_threshold)
Return connected components based on density values.
See IMP.container for more information.
See IMP.cgal for more information.
Definition: cgal_config.h:107
em::DensityMap * remove_background(em::DensityMap *dmap, float threshold, float edge_threshold)
Returns a map containing all density without the background.
void set_check_level(CheckLevel tf)
Control runtime checks in the code.
ProteinsAnchorsSamplingSpace get_part_of_sampling_space(const ProteinsAnchorsSamplingSpace &prots_ss, const Strings &prot_names)
Get the sampling space of few of the proteins.
See IMP.base for more information.
Definition: base/Array.h:20
std::string get_data_path(std::string file_name)
Return the full path to installed data.
statistics::Histogram get_density_histogram(const em::DensityMap *dmap, float threshold, int num_bins)
Get a histogram of density values.
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.
double get_rmsd(const Vector3DsOrXYZs0 &m1, const Vector3DsOrXYZs1 &m2, const IMP::algebra::Transformation3D &tr_for_second=IMP::algebra::get_identity_transformation_3d())
Calculate the root mean square deviation between two sets of 3D points.
Definition: distance.h:28
See IMP.score_functor for more information.
Definition: AddScores.h:14
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.
See IMP.statistics for more information.
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
void write_connolly_surface(atom::Atoms as, base::TextOutput fn, float density, float probe_radius)
Write the Connolly surface for a set of atoms to a file.
See IMP.kernel for more information.
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.
A restraint is a term in an IMP ScoringFunction.
double get_radius_of_gyration(const Vector3Ds &ps)
Return the radius of gyration of a set of points.
Definition: Vector3D.h:65
See IMP.em for more information.
Definition: CoarseCC.h:23
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
Common base class for heavy weight IMP objects.
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.
atom::Hierarchy create_coarse_molecule_from_molecule(const atom::Hierarchy &mh, int num_beads, kernel::Model *mdl, float bead_radius, bool add_conn_restraint=false)
Coarsen a molecule based on atom clustering.
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.
See IMP.core for more information.
See IMP.algebra for more information.
FittingSolutionRecords get_close_to_point(const FittingSolutionRecords &fit_sols, atom::Hierarchy mh, IMP::kernel::Particle *ap, Float dist)
prune solutions by distance to an anchor point
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.
void show(Hierarchy h, std::ostream &out=std::cout)
Print out a molecular hierarchy.
atom::Hierarchies create_coarse_molecules_from_molecules(const atom::Hierarchies &mhs, int frag_len, kernel::Model *mdl, float bead_radius, bool add_conn_restraint=false)
Coarsen molecules based on atom clustering.
See IMP.display for more information.
Definition: BildWriter.h:20
CheckLevel get_check_level()
Get the current audit mode.
See IMP.atom for more information.
See IMP.rmf for more information.
Definition: associations.h:20
See IMP.domino for more information.
Definition: analysis.h:15