IMP  2.1.0
The Integrative Modeling Platform
cnmultifit/__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_cnmultifit', [dirname(__file__)])
19  except ImportError:
20  import _IMP_cnmultifit
21  return _IMP_cnmultifit
22  if fp is not None:
23  try:
24  _mod = imp.load_module('_IMP_cnmultifit', fp, pathname, description)
25  finally:
26  fp.close()
27  return _mod
28  _IMP_cnmultifit = swig_import_helper()
29  del swig_import_helper
30 else:
31  import _IMP_cnmultifit
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_CNMULTIFIT_SwigPyIterator(_object):
80  """Proxy of C++ swig::IMP_CNMULTIFIT_SwigPyIterator class"""
81  __swig_setmethods__ = {}
82  __setattr__ = lambda self, name, value: _swig_setattr(self, IMP_CNMULTIFIT_SwigPyIterator, name, value)
83  __swig_getmethods__ = {}
84  __getattr__ = lambda self, name: _swig_getattr(self, IMP_CNMULTIFIT_SwigPyIterator, name)
85  def __init__(self, *args, **kwargs): raise AttributeError("No constructor defined - class is abstract")
86  __repr__ = _swig_repr
87  __swig_destroy__ = _IMP_cnmultifit.delete_IMP_CNMULTIFIT_SwigPyIterator
88  __del__ = lambda self : None;
89  def value(self):
90  """value(IMP_CNMULTIFIT_SwigPyIterator self) -> PyObject *"""
91  return _IMP_cnmultifit.IMP_CNMULTIFIT_SwigPyIterator_value(self)
92 
93  def incr(self, n=1):
94  """
95  incr(IMP_CNMULTIFIT_SwigPyIterator self, size_t n=1) -> IMP_CNMULTIFIT_SwigPyIterator
96  incr(IMP_CNMULTIFIT_SwigPyIterator self) -> IMP_CNMULTIFIT_SwigPyIterator
97  """
98  return _IMP_cnmultifit.IMP_CNMULTIFIT_SwigPyIterator_incr(self, n)
99 
100  def decr(self, n=1):
101  """
102  decr(IMP_CNMULTIFIT_SwigPyIterator self, size_t n=1) -> IMP_CNMULTIFIT_SwigPyIterator
103  decr(IMP_CNMULTIFIT_SwigPyIterator self) -> IMP_CNMULTIFIT_SwigPyIterator
104  """
105  return _IMP_cnmultifit.IMP_CNMULTIFIT_SwigPyIterator_decr(self, n)
106 
107  def distance(self, *args):
108  """distance(IMP_CNMULTIFIT_SwigPyIterator self, IMP_CNMULTIFIT_SwigPyIterator x) -> ptrdiff_t"""
109  return _IMP_cnmultifit.IMP_CNMULTIFIT_SwigPyIterator_distance(self, *args)
110 
111  def equal(self, *args):
112  """equal(IMP_CNMULTIFIT_SwigPyIterator self, IMP_CNMULTIFIT_SwigPyIterator x) -> bool"""
113  return _IMP_cnmultifit.IMP_CNMULTIFIT_SwigPyIterator_equal(self, *args)
114 
115  def copy(self):
116  """copy(IMP_CNMULTIFIT_SwigPyIterator self) -> IMP_CNMULTIFIT_SwigPyIterator"""
117  return _IMP_cnmultifit.IMP_CNMULTIFIT_SwigPyIterator_copy(self)
118 
119  def next(self):
120  """next(IMP_CNMULTIFIT_SwigPyIterator self) -> PyObject *"""
121  return _IMP_cnmultifit.IMP_CNMULTIFIT_SwigPyIterator_next(self)
122 
123  def __next__(self):
124  """__next__(IMP_CNMULTIFIT_SwigPyIterator self) -> PyObject *"""
125  return _IMP_cnmultifit.IMP_CNMULTIFIT_SwigPyIterator___next__(self)
126 
127  def previous(self):
128  """previous(IMP_CNMULTIFIT_SwigPyIterator self) -> PyObject *"""
129  return _IMP_cnmultifit.IMP_CNMULTIFIT_SwigPyIterator_previous(self)
130 
131  def advance(self, *args):
132  """advance(IMP_CNMULTIFIT_SwigPyIterator self, ptrdiff_t n) -> IMP_CNMULTIFIT_SwigPyIterator"""
133  return _IMP_cnmultifit.IMP_CNMULTIFIT_SwigPyIterator_advance(self, *args)
134 
135  def __eq__(self, *args):
136  """__eq__(IMP_CNMULTIFIT_SwigPyIterator self, IMP_CNMULTIFIT_SwigPyIterator x) -> bool"""
137  return _IMP_cnmultifit.IMP_CNMULTIFIT_SwigPyIterator___eq__(self, *args)
138 
139  def __ne__(self, *args):
140  """__ne__(IMP_CNMULTIFIT_SwigPyIterator self, IMP_CNMULTIFIT_SwigPyIterator x) -> bool"""
141  return _IMP_cnmultifit.IMP_CNMULTIFIT_SwigPyIterator___ne__(self, *args)
142 
143  def __iadd__(self, *args):
144  """__iadd__(IMP_CNMULTIFIT_SwigPyIterator self, ptrdiff_t n) -> IMP_CNMULTIFIT_SwigPyIterator"""
145  return _IMP_cnmultifit.IMP_CNMULTIFIT_SwigPyIterator___iadd__(self, *args)
146 
147  def __isub__(self, *args):
148  """__isub__(IMP_CNMULTIFIT_SwigPyIterator self, ptrdiff_t n) -> IMP_CNMULTIFIT_SwigPyIterator"""
149  return _IMP_cnmultifit.IMP_CNMULTIFIT_SwigPyIterator___isub__(self, *args)
150 
151  def __add__(self, *args):
152  """__add__(IMP_CNMULTIFIT_SwigPyIterator self, ptrdiff_t n) -> IMP_CNMULTIFIT_SwigPyIterator"""
153  return _IMP_cnmultifit.IMP_CNMULTIFIT_SwigPyIterator___add__(self, *args)
154 
155  def __sub__(self, *args):
156  """
157  __sub__(IMP_CNMULTIFIT_SwigPyIterator self, ptrdiff_t n) -> IMP_CNMULTIFIT_SwigPyIterator
158  __sub__(IMP_CNMULTIFIT_SwigPyIterator self, IMP_CNMULTIFIT_SwigPyIterator x) -> ptrdiff_t
159  """
160  return _IMP_cnmultifit.IMP_CNMULTIFIT_SwigPyIterator___sub__(self, *args)
161 
162  def __iter__(self): return self
163 IMP_CNMULTIFIT_SwigPyIterator_swigregister = _IMP_cnmultifit.IMP_CNMULTIFIT_SwigPyIterator_swigregister
164 IMP_CNMULTIFIT_SwigPyIterator_swigregister(IMP_CNMULTIFIT_SwigPyIterator)
165 
166 _value_types=[]
167 _object_types=[]
168 _raii_types=[]
169 _plural_types=[]
170 
171 IMP_DEBUG = _IMP_cnmultifit.IMP_DEBUG
172 IMP_RELEASE = _IMP_cnmultifit.IMP_RELEASE
173 IMP_SILENT = _IMP_cnmultifit.IMP_SILENT
174 IMP_PROGRESS = _IMP_cnmultifit.IMP_PROGRESS
175 IMP_TERSE = _IMP_cnmultifit.IMP_TERSE
176 IMP_VERBOSE = _IMP_cnmultifit.IMP_VERBOSE
177 IMP_MEMORY = _IMP_cnmultifit.IMP_MEMORY
178 IMP_NONE = _IMP_cnmultifit.IMP_NONE
179 IMP_USAGE = _IMP_cnmultifit.IMP_USAGE
180 IMP_INTERNAL = _IMP_cnmultifit.IMP_INTERNAL
181 IMP_BASE_HAS_LOG4CXX = _IMP_cnmultifit.IMP_BASE_HAS_LOG4CXX
182 IMP_COMPILER_HAS_AUTO = _IMP_cnmultifit.IMP_COMPILER_HAS_AUTO
183 IMP_COMPILER_HAS_DEBUG_VECTOR = _IMP_cnmultifit.IMP_COMPILER_HAS_DEBUG_VECTOR
184 IMP_BASE_HAS_BOOST_RANDOM = _IMP_cnmultifit.IMP_BASE_HAS_BOOST_RANDOM
185 IMP_BASE_HAS_GPERFTOOLS = _IMP_cnmultifit.IMP_BASE_HAS_GPERFTOOLS
186 IMP_BASE_HAS_TCMALLOC_HEAPCHECKER = _IMP_cnmultifit.IMP_BASE_HAS_TCMALLOC_HEAPCHECKER
187 IMP_BASE_HAS_TCMALLOC_HEAPPROFILER = _IMP_cnmultifit.IMP_BASE_HAS_TCMALLOC_HEAPPROFILER
188 IMPBASE_SHOW_WARNINGS = _IMP_cnmultifit.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_cnmultifit.DEFAULT_CHECK
216 NONE = _IMP_cnmultifit.NONE
217 USAGE = _IMP_cnmultifit.USAGE
218 USAGE_AND_INTERNAL = _IMP_cnmultifit.USAGE_AND_INTERNAL
219 
220 def set_check_level(*args):
221  """set_check_level(IMP::base::CheckLevel tf)"""
222  return _IMP_cnmultifit.set_check_level(*args)
223 
224 def get_check_level():
225  """get_check_level() -> IMP::base::CheckLevel"""
226  return _IMP_cnmultifit.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_cnmultifit._ostream_write(self, *args)
238 
239 _ostream_swigregister = _IMP_cnmultifit._ostream_swigregister
240 _ostream_swigregister(_ostream)
241 
242 IMP_COMPILER_HAS_OVERRIDE = _IMP_cnmultifit.IMP_COMPILER_HAS_OVERRIDE
243 IMP_COMPILER_HAS_FINAL = _IMP_cnmultifit.IMP_COMPILER_HAS_FINAL
244 IMP_HAS_NOEXCEPT = _IMP_cnmultifit.IMP_HAS_NOEXCEPT
245 import IMP.base
246 IMP_CGAL_HAS_BOOST_FILESYSTEM = _IMP_cnmultifit.IMP_CGAL_HAS_BOOST_FILESYSTEM
247 IMP_CGAL_HAS_BOOST_PROGRAMOPTIONS = _IMP_cnmultifit.IMP_CGAL_HAS_BOOST_PROGRAMOPTIONS
248 IMP_CGAL_HAS_BOOST_RANDOM = _IMP_cnmultifit.IMP_CGAL_HAS_BOOST_RANDOM
249 IMP_CGAL_HAS_BOOST_SYSTEM = _IMP_cnmultifit.IMP_CGAL_HAS_BOOST_SYSTEM
250 IMPCGAL_SHOW_WARNINGS = _IMP_cnmultifit.IMPCGAL_SHOW_WARNINGS
251 import IMP.cgal
252 IMP_ALGEBRA_HAS_IMP_CGAL = _IMP_cnmultifit.IMP_ALGEBRA_HAS_IMP_CGAL
253 IMP_ALGEBRA_HAS_BOOST_FILESYSTEM = _IMP_cnmultifit.IMP_ALGEBRA_HAS_BOOST_FILESYSTEM
254 IMP_ALGEBRA_HAS_BOOST_PROGRAMOPTIONS = _IMP_cnmultifit.IMP_ALGEBRA_HAS_BOOST_PROGRAMOPTIONS
255 IMP_ALGEBRA_HAS_BOOST_RANDOM = _IMP_cnmultifit.IMP_ALGEBRA_HAS_BOOST_RANDOM
256 IMP_ALGEBRA_HAS_BOOST_SYSTEM = _IMP_cnmultifit.IMP_ALGEBRA_HAS_BOOST_SYSTEM
257 IMP_ALGEBRA_HAS_CGAL = _IMP_cnmultifit.IMP_ALGEBRA_HAS_CGAL
258 IMP_ALGEBRA_HAS_ANN = _IMP_cnmultifit.IMP_ALGEBRA_HAS_ANN
259 IMPALGEBRA_SHOW_WARNINGS = _IMP_cnmultifit.IMPALGEBRA_SHOW_WARNINGS
260 import IMP.algebra
261 IMP_KERNEL_HAS_IMP_CGAL = _IMP_cnmultifit.IMP_KERNEL_HAS_IMP_CGAL
262 IMP_KERNEL_HAS_BOOST_PROGRAMOPTIONS = _IMP_cnmultifit.IMP_KERNEL_HAS_BOOST_PROGRAMOPTIONS
263 IMP_KERNEL_HAS_BOOST_RANDOM = _IMP_cnmultifit.IMP_KERNEL_HAS_BOOST_RANDOM
264 IMP_KERNEL_HAS_BOOST_SYSTEM = _IMP_cnmultifit.IMP_KERNEL_HAS_BOOST_SYSTEM
265 IMP_KERNEL_HAS_CGAL = _IMP_cnmultifit.IMP_KERNEL_HAS_CGAL
266 IMPKERNEL_SHOW_WARNINGS = _IMP_cnmultifit.IMPKERNEL_SHOW_WARNINGS
267 import IMP.kernel
268 IMP_DISPLAY_HAS_IMP_BASE = _IMP_cnmultifit.IMP_DISPLAY_HAS_IMP_BASE
269 IMP_DISPLAY_HAS_IMP_CGAL = _IMP_cnmultifit.IMP_DISPLAY_HAS_IMP_CGAL
270 IMP_DISPLAY_HAS_BOOST_FILESYSTEM = _IMP_cnmultifit.IMP_DISPLAY_HAS_BOOST_FILESYSTEM
271 IMP_DISPLAY_HAS_BOOST_PROGRAMOPTIONS = _IMP_cnmultifit.IMP_DISPLAY_HAS_BOOST_PROGRAMOPTIONS
272 IMP_DISPLAY_HAS_BOOST_RANDOM = _IMP_cnmultifit.IMP_DISPLAY_HAS_BOOST_RANDOM
273 IMP_DISPLAY_HAS_BOOST_SYSTEM = _IMP_cnmultifit.IMP_DISPLAY_HAS_BOOST_SYSTEM
274 IMP_DISPLAY_HAS_CGAL = _IMP_cnmultifit.IMP_DISPLAY_HAS_CGAL
275 IMPDISPLAY_SHOW_WARNINGS = _IMP_cnmultifit.IMPDISPLAY_SHOW_WARNINGS
276 import IMP.display
277 IMP_SCORE_FUNCTOR_HAS_IMP_CGAL = _IMP_cnmultifit.IMP_SCORE_FUNCTOR_HAS_IMP_CGAL
278 IMP_SCORE_FUNCTOR_HAS_BOOST_FILESYSTEM = _IMP_cnmultifit.IMP_SCORE_FUNCTOR_HAS_BOOST_FILESYSTEM
279 IMP_SCORE_FUNCTOR_HAS_BOOST_PROGRAMOPTIONS = _IMP_cnmultifit.IMP_SCORE_FUNCTOR_HAS_BOOST_PROGRAMOPTIONS
280 IMP_SCORE_FUNCTOR_HAS_BOOST_RANDOM = _IMP_cnmultifit.IMP_SCORE_FUNCTOR_HAS_BOOST_RANDOM
281 IMP_SCORE_FUNCTOR_HAS_BOOST_SYSTEM = _IMP_cnmultifit.IMP_SCORE_FUNCTOR_HAS_BOOST_SYSTEM
282 IMP_SCORE_FUNCTOR_HAS_CGAL = _IMP_cnmultifit.IMP_SCORE_FUNCTOR_HAS_CGAL
283 IMPSCOREFUNCTOR_SHOW_WARNINGS = _IMP_cnmultifit.IMPSCOREFUNCTOR_SHOW_WARNINGS
284 import IMP.score_functor
285 IMP_STATISTICS_HAS_IMP_BASE = _IMP_cnmultifit.IMP_STATISTICS_HAS_IMP_BASE
286 IMP_STATISTICS_HAS_IMP_CGAL = _IMP_cnmultifit.IMP_STATISTICS_HAS_IMP_CGAL
287 IMP_STATISTICS_HAS_BOOST_FILESYSTEM = _IMP_cnmultifit.IMP_STATISTICS_HAS_BOOST_FILESYSTEM
288 IMP_STATISTICS_HAS_BOOST_PROGRAMOPTIONS = _IMP_cnmultifit.IMP_STATISTICS_HAS_BOOST_PROGRAMOPTIONS
289 IMP_STATISTICS_HAS_BOOST_RANDOM = _IMP_cnmultifit.IMP_STATISTICS_HAS_BOOST_RANDOM
290 IMP_STATISTICS_HAS_BOOST_SYSTEM = _IMP_cnmultifit.IMP_STATISTICS_HAS_BOOST_SYSTEM
291 IMP_STATISTICS_HAS_CGAL = _IMP_cnmultifit.IMP_STATISTICS_HAS_CGAL
292 IMPSTATISTICS_SHOW_WARNINGS = _IMP_cnmultifit.IMPSTATISTICS_SHOW_WARNINGS
293 import IMP.statistics
294 IMP_CORE_HAS_IMP_BASE = _IMP_cnmultifit.IMP_CORE_HAS_IMP_BASE
295 IMP_CORE_HAS_IMP_CGAL = _IMP_cnmultifit.IMP_CORE_HAS_IMP_CGAL
296 IMP_CORE_HAS_IMP_KERNEL = _IMP_cnmultifit.IMP_CORE_HAS_IMP_KERNEL
297 IMP_CORE_HAS_BOOST_FILESYSTEM = _IMP_cnmultifit.IMP_CORE_HAS_BOOST_FILESYSTEM
298 IMP_CORE_HAS_BOOST_PROGRAMOPTIONS = _IMP_cnmultifit.IMP_CORE_HAS_BOOST_PROGRAMOPTIONS
299 IMP_CORE_HAS_BOOST_RANDOM = _IMP_cnmultifit.IMP_CORE_HAS_BOOST_RANDOM
300 IMP_CORE_HAS_BOOST_SYSTEM = _IMP_cnmultifit.IMP_CORE_HAS_BOOST_SYSTEM
301 IMP_CORE_HAS_CGAL = _IMP_cnmultifit.IMP_CORE_HAS_CGAL
302 IMPCORE_SHOW_WARNINGS = _IMP_cnmultifit.IMPCORE_SHOW_WARNINGS
303 import IMP.core
304 IMP_CONTAINER_HAS_IMP_ALGEBRA = _IMP_cnmultifit.IMP_CONTAINER_HAS_IMP_ALGEBRA
305 IMP_CONTAINER_HAS_IMP_BASE = _IMP_cnmultifit.IMP_CONTAINER_HAS_IMP_BASE
306 IMP_CONTAINER_HAS_IMP_CGAL = _IMP_cnmultifit.IMP_CONTAINER_HAS_IMP_CGAL
307 IMP_CONTAINER_HAS_IMP_DISPLAY = _IMP_cnmultifit.IMP_CONTAINER_HAS_IMP_DISPLAY
308 IMP_CONTAINER_HAS_IMP_KERNEL = _IMP_cnmultifit.IMP_CONTAINER_HAS_IMP_KERNEL
309 IMP_CONTAINER_HAS_IMP_SCORE_FUNCTOR = _IMP_cnmultifit.IMP_CONTAINER_HAS_IMP_SCORE_FUNCTOR
310 IMP_CONTAINER_HAS_BOOST_FILESYSTEM = _IMP_cnmultifit.IMP_CONTAINER_HAS_BOOST_FILESYSTEM
311 IMP_CONTAINER_HAS_BOOST_PROGRAMOPTIONS = _IMP_cnmultifit.IMP_CONTAINER_HAS_BOOST_PROGRAMOPTIONS
312 IMP_CONTAINER_HAS_BOOST_RANDOM = _IMP_cnmultifit.IMP_CONTAINER_HAS_BOOST_RANDOM
313 IMP_CONTAINER_HAS_BOOST_SYSTEM = _IMP_cnmultifit.IMP_CONTAINER_HAS_BOOST_SYSTEM
314 IMP_CONTAINER_HAS_CGAL = _IMP_cnmultifit.IMP_CONTAINER_HAS_CGAL
315 IMPCONTAINER_SHOW_WARNINGS = _IMP_cnmultifit.IMPCONTAINER_SHOW_WARNINGS
316 import IMP.container
317 IMP_ATOM_HAS_IMP_BASE = _IMP_cnmultifit.IMP_ATOM_HAS_IMP_BASE
318 IMP_ATOM_HAS_IMP_CGAL = _IMP_cnmultifit.IMP_ATOM_HAS_IMP_CGAL
319 IMP_ATOM_HAS_IMP_KERNEL = _IMP_cnmultifit.IMP_ATOM_HAS_IMP_KERNEL
320 IMP_ATOM_HAS_IMP_SCORE_FUNCTOR = _IMP_cnmultifit.IMP_ATOM_HAS_IMP_SCORE_FUNCTOR
321 IMP_ATOM_HAS_BOOST_PROGRAMOPTIONS = _IMP_cnmultifit.IMP_ATOM_HAS_BOOST_PROGRAMOPTIONS
322 IMP_ATOM_HAS_BOOST_RANDOM = _IMP_cnmultifit.IMP_ATOM_HAS_BOOST_RANDOM
323 IMP_ATOM_HAS_BOOST_REGEX = _IMP_cnmultifit.IMP_ATOM_HAS_BOOST_REGEX
324 IMP_ATOM_HAS_BOOST_SYSTEM = _IMP_cnmultifit.IMP_ATOM_HAS_BOOST_SYSTEM
325 IMP_ATOM_HAS_CGAL = _IMP_cnmultifit.IMP_ATOM_HAS_CGAL
326 IMPATOM_SHOW_WARNINGS = _IMP_cnmultifit.IMPATOM_SHOW_WARNINGS
327 IMP_ATOM_TYPE_INDEX = _IMP_cnmultifit.IMP_ATOM_TYPE_INDEX
328 IMP_RESIDUE_TYPE_INDEX = _IMP_cnmultifit.IMP_RESIDUE_TYPE_INDEX
329 IMP_HIERARCHY_TYPE_INDEX = _IMP_cnmultifit.IMP_HIERARCHY_TYPE_INDEX
330 import IMP.atom
331 IMP_EM_HAS_IMP_CGAL = _IMP_cnmultifit.IMP_EM_HAS_IMP_CGAL
332 IMP_EM_HAS_IMP_CONTAINER = _IMP_cnmultifit.IMP_EM_HAS_IMP_CONTAINER
333 IMP_EM_HAS_IMP_DISPLAY = _IMP_cnmultifit.IMP_EM_HAS_IMP_DISPLAY
334 IMP_EM_HAS_IMP_KERNEL = _IMP_cnmultifit.IMP_EM_HAS_IMP_KERNEL
335 IMP_EM_HAS_IMP_SCORE_FUNCTOR = _IMP_cnmultifit.IMP_EM_HAS_IMP_SCORE_FUNCTOR
336 IMP_EM_HAS_BOOST_FILESYSTEM = _IMP_cnmultifit.IMP_EM_HAS_BOOST_FILESYSTEM
337 IMP_EM_HAS_BOOST_PROGRAMOPTIONS = _IMP_cnmultifit.IMP_EM_HAS_BOOST_PROGRAMOPTIONS
338 IMP_EM_HAS_BOOST_RANDOM = _IMP_cnmultifit.IMP_EM_HAS_BOOST_RANDOM
339 IMP_EM_HAS_BOOST_REGEX = _IMP_cnmultifit.IMP_EM_HAS_BOOST_REGEX
340 IMP_EM_HAS_BOOST_SYSTEM = _IMP_cnmultifit.IMP_EM_HAS_BOOST_SYSTEM
341 IMP_EM_HAS_CGAL = _IMP_cnmultifit.IMP_EM_HAS_CGAL
342 IMPEM_SHOW_WARNINGS = _IMP_cnmultifit.IMPEM_SHOW_WARNINGS
343 import IMP.em
344 IMP_RMF_HAS_IMP_BASE = _IMP_cnmultifit.IMP_RMF_HAS_IMP_BASE
345 IMP_RMF_HAS_IMP_CGAL = _IMP_cnmultifit.IMP_RMF_HAS_IMP_CGAL
346 IMP_RMF_HAS_IMP_SCORE_FUNCTOR = _IMP_cnmultifit.IMP_RMF_HAS_IMP_SCORE_FUNCTOR
347 IMP_RMF_HAS_BOOST_FILESYSTEM = _IMP_cnmultifit.IMP_RMF_HAS_BOOST_FILESYSTEM
348 IMP_RMF_HAS_BOOST_PROGRAMOPTIONS = _IMP_cnmultifit.IMP_RMF_HAS_BOOST_PROGRAMOPTIONS
349 IMP_RMF_HAS_BOOST_RANDOM = _IMP_cnmultifit.IMP_RMF_HAS_BOOST_RANDOM
350 IMP_RMF_HAS_BOOST_REGEX = _IMP_cnmultifit.IMP_RMF_HAS_BOOST_REGEX
351 IMP_RMF_HAS_BOOST_SYSTEM = _IMP_cnmultifit.IMP_RMF_HAS_BOOST_SYSTEM
352 IMP_RMF_HAS_CGAL = _IMP_cnmultifit.IMP_RMF_HAS_CGAL
353 IMPRMF_SHOW_WARNINGS = _IMP_cnmultifit.IMPRMF_SHOW_WARNINGS
354 import IMP.rmf
355 import RMF
356 IMP_DOMINO_HAS_IMP_ATOM = _IMP_cnmultifit.IMP_DOMINO_HAS_IMP_ATOM
357 IMP_DOMINO_HAS_IMP_BASE = _IMP_cnmultifit.IMP_DOMINO_HAS_IMP_BASE
358 IMP_DOMINO_HAS_IMP_CGAL = _IMP_cnmultifit.IMP_DOMINO_HAS_IMP_CGAL
359 IMP_DOMINO_HAS_IMP_KERNEL = _IMP_cnmultifit.IMP_DOMINO_HAS_IMP_KERNEL
360 IMP_DOMINO_HAS_IMP_RMF = _IMP_cnmultifit.IMP_DOMINO_HAS_IMP_RMF
361 IMP_DOMINO_HAS_IMP_SCORE_FUNCTOR = _IMP_cnmultifit.IMP_DOMINO_HAS_IMP_SCORE_FUNCTOR
362 IMP_DOMINO_HAS_BOOST_FILESYSTEM = _IMP_cnmultifit.IMP_DOMINO_HAS_BOOST_FILESYSTEM
363 IMP_DOMINO_HAS_BOOST_PROGRAMOPTIONS = _IMP_cnmultifit.IMP_DOMINO_HAS_BOOST_PROGRAMOPTIONS
364 IMP_DOMINO_HAS_BOOST_RANDOM = _IMP_cnmultifit.IMP_DOMINO_HAS_BOOST_RANDOM
365 IMP_DOMINO_HAS_BOOST_REGEX = _IMP_cnmultifit.IMP_DOMINO_HAS_BOOST_REGEX
366 IMP_DOMINO_HAS_BOOST_SYSTEM = _IMP_cnmultifit.IMP_DOMINO_HAS_BOOST_SYSTEM
367 IMP_DOMINO_HAS_CGAL = _IMP_cnmultifit.IMP_DOMINO_HAS_CGAL
368 IMP_DOMINO_HAS_HDF5 = _IMP_cnmultifit.IMP_DOMINO_HAS_HDF5
369 IMP_DOMINO_HAS_RMF = _IMP_cnmultifit.IMP_DOMINO_HAS_RMF
370 IMPDOMINO_SHOW_WARNINGS = _IMP_cnmultifit.IMPDOMINO_SHOW_WARNINGS
371 import RMF_HDF5
372 import IMP.domino
373 IMP_MULTIFIT_HAS_IMP_BASE = _IMP_cnmultifit.IMP_MULTIFIT_HAS_IMP_BASE
374 IMP_MULTIFIT_HAS_IMP_CGAL = _IMP_cnmultifit.IMP_MULTIFIT_HAS_IMP_CGAL
375 IMP_MULTIFIT_HAS_IMP_CONTAINER = _IMP_cnmultifit.IMP_MULTIFIT_HAS_IMP_CONTAINER
376 IMP_MULTIFIT_HAS_IMP_DISPLAY = _IMP_cnmultifit.IMP_MULTIFIT_HAS_IMP_DISPLAY
377 IMP_MULTIFIT_HAS_IMP_KERNEL = _IMP_cnmultifit.IMP_MULTIFIT_HAS_IMP_KERNEL
378 IMP_MULTIFIT_HAS_IMP_RMF = _IMP_cnmultifit.IMP_MULTIFIT_HAS_IMP_RMF
379 IMP_MULTIFIT_HAS_IMP_SCORE_FUNCTOR = _IMP_cnmultifit.IMP_MULTIFIT_HAS_IMP_SCORE_FUNCTOR
380 IMP_MULTIFIT_HAS_BOOST_GRAPH = _IMP_cnmultifit.IMP_MULTIFIT_HAS_BOOST_GRAPH
381 IMP_MULTIFIT_HAS_BOOST_RANDOM = _IMP_cnmultifit.IMP_MULTIFIT_HAS_BOOST_RANDOM
382 IMP_MULTIFIT_HAS_BOOST_REGEX = _IMP_cnmultifit.IMP_MULTIFIT_HAS_BOOST_REGEX
383 IMP_MULTIFIT_HAS_BOOST_SYSTEM = _IMP_cnmultifit.IMP_MULTIFIT_HAS_BOOST_SYSTEM
384 IMP_MULTIFIT_HAS_CGAL = _IMP_cnmultifit.IMP_MULTIFIT_HAS_CGAL
385 IMP_MULTIFIT_HAS_HDF5 = _IMP_cnmultifit.IMP_MULTIFIT_HAS_HDF5
386 IMP_MULTIFIT_HAS_RMF = _IMP_cnmultifit.IMP_MULTIFIT_HAS_RMF
387 IMPMULTIFIT_SHOW_WARNINGS = _IMP_cnmultifit.IMPMULTIFIT_SHOW_WARNINGS
388 import IMP.multifit
389 IMP_CNMULTIFIT_HAS_IMP_BASE = _IMP_cnmultifit.IMP_CNMULTIFIT_HAS_IMP_BASE
390 IMP_CNMULTIFIT_HAS_IMP_CGAL = _IMP_cnmultifit.IMP_CNMULTIFIT_HAS_IMP_CGAL
391 IMP_CNMULTIFIT_HAS_IMP_CONTAINER = _IMP_cnmultifit.IMP_CNMULTIFIT_HAS_IMP_CONTAINER
392 IMP_CNMULTIFIT_HAS_IMP_DISPLAY = _IMP_cnmultifit.IMP_CNMULTIFIT_HAS_IMP_DISPLAY
393 IMP_CNMULTIFIT_HAS_IMP_DOMINO = _IMP_cnmultifit.IMP_CNMULTIFIT_HAS_IMP_DOMINO
394 IMP_CNMULTIFIT_HAS_IMP_KERNEL = _IMP_cnmultifit.IMP_CNMULTIFIT_HAS_IMP_KERNEL
395 IMP_CNMULTIFIT_HAS_IMP_RMF = _IMP_cnmultifit.IMP_CNMULTIFIT_HAS_IMP_RMF
396 IMP_CNMULTIFIT_HAS_IMP_SCORE_FUNCTOR = _IMP_cnmultifit.IMP_CNMULTIFIT_HAS_IMP_SCORE_FUNCTOR
397 IMP_CNMULTIFIT_HAS_BOOST_GRAPH = _IMP_cnmultifit.IMP_CNMULTIFIT_HAS_BOOST_GRAPH
398 IMP_CNMULTIFIT_HAS_BOOST_RANDOM = _IMP_cnmultifit.IMP_CNMULTIFIT_HAS_BOOST_RANDOM
399 IMP_CNMULTIFIT_HAS_BOOST_REGEX = _IMP_cnmultifit.IMP_CNMULTIFIT_HAS_BOOST_REGEX
400 IMP_CNMULTIFIT_HAS_BOOST_SYSTEM = _IMP_cnmultifit.IMP_CNMULTIFIT_HAS_BOOST_SYSTEM
401 IMP_CNMULTIFIT_HAS_CGAL = _IMP_cnmultifit.IMP_CNMULTIFIT_HAS_CGAL
402 IMP_CNMULTIFIT_HAS_FFTW3 = _IMP_cnmultifit.IMP_CNMULTIFIT_HAS_FFTW3
403 IMP_CNMULTIFIT_HAS_HDF5 = _IMP_cnmultifit.IMP_CNMULTIFIT_HAS_HDF5
404 IMP_CNMULTIFIT_HAS_RMF = _IMP_cnmultifit.IMP_CNMULTIFIT_HAS_RMF
405 IMPCNMULTIFIT_SHOW_WARNINGS = _IMP_cnmultifit.IMPCNMULTIFIT_SHOW_WARNINGS
406 AlignSymmetrics=list
407 _plural_types.append("AlignSymmetrics")
408 _value_types.append("AlignSymmetric")
409 
410 CnSymmAxisDetectors=list
411 _plural_types.append("CnSymmAxisDetectors")
412 _value_types.append("CnSymmAxisDetector")
413 
414 MolCnSymmAxisDetectors=list
415 _plural_types.append("MolCnSymmAxisDetectors")
416 _value_types.append("MolCnSymmAxisDetector")
417 
418 class CnSymmAxisDetector(_object):
419  """Proxy of C++ IMP::cnmultifit::CnSymmAxisDetector class"""
420  __swig_setmethods__ = {}
421  __setattr__ = lambda self, name, value: _swig_setattr(self, CnSymmAxisDetector, name, value)
422  __swig_getmethods__ = {}
423  __getattr__ = lambda self, name: _swig_getattr(self, CnSymmAxisDetector, name)
424  def __init__(self, *args):
425  """
426  __init__(IMP::cnmultifit::CnSymmAxisDetector self, int symm_deg, DensityMap dmap, float density_threshold, float top_p=0.8) -> CnSymmAxisDetector
427  __init__(IMP::cnmultifit::CnSymmAxisDetector self, int symm_deg, DensityMap dmap, float density_threshold) -> CnSymmAxisDetector
428  __init__(IMP::cnmultifit::CnSymmAxisDetector self, int symm_deg, IMP::atom::Hierarchies const & mhs) -> CnSymmAxisDetector
429  """
430  this = _IMP_cnmultifit.new_CnSymmAxisDetector(*args)
431  try: self.this.append(this)
432  except: self.this = this
433  def get_pca(self):
434  """get_pca(CnSymmAxisDetector self) -> PrincipalComponentAnalysis3D"""
435  return _IMP_cnmultifit.CnSymmAxisDetector_get_pca(self)
436 
437  def calc_symm_score(self, *args):
438  """calc_symm_score(CnSymmAxisDetector self, int symm_axis_ind) -> float"""
439  return _IMP_cnmultifit.CnSymmAxisDetector_calc_symm_score(self, *args)
440 
441  def get_symmetry_axis(self):
442  """get_symmetry_axis(CnSymmAxisDetector self) -> Vector3D"""
443  return _IMP_cnmultifit.CnSymmAxisDetector_get_symmetry_axis(self)
444 
445  def get_symmetry_axis_index(self):
446  """get_symmetry_axis_index(CnSymmAxisDetector self) -> int"""
447  return _IMP_cnmultifit.CnSymmAxisDetector_get_symmetry_axis_index(self)
448 
449  def get_non_symmetry_axis_length(self):
450  """get_non_symmetry_axis_length(CnSymmAxisDetector self) -> int"""
451  return _IMP_cnmultifit.CnSymmAxisDetector_get_non_symmetry_axis_length(self)
452 
453  def show(self, *args):
454  """
455  show(CnSymmAxisDetector self, _ostream out=std::cout)
456  show(CnSymmAxisDetector self)
457  """
458  return _IMP_cnmultifit.CnSymmAxisDetector_show(self, *args)
459 
460  def __str__(self):
461  """__str__(CnSymmAxisDetector self) -> std::string"""
462  return _IMP_cnmultifit.CnSymmAxisDetector___str__(self)
463 
464  def __repr__(self):
465  """__repr__(CnSymmAxisDetector self) -> std::string"""
466  return _IMP_cnmultifit.CnSymmAxisDetector___repr__(self)
467 
468  __swig_destroy__ = _IMP_cnmultifit.delete_CnSymmAxisDetector
469  __del__ = lambda self : None;
470 CnSymmAxisDetector_swigregister = _IMP_cnmultifit.CnSymmAxisDetector_swigregister
471 CnSymmAxisDetector_swigregister(CnSymmAxisDetector)
472 
473 class MolCnSymmAxisDetector(_object):
474  """Proxy of C++ IMP::cnmultifit::MolCnSymmAxisDetector class"""
475  __swig_setmethods__ = {}
476  __setattr__ = lambda self, name, value: _swig_setattr(self, MolCnSymmAxisDetector, name, value)
477  __swig_getmethods__ = {}
478  __getattr__ = lambda self, name: _swig_getattr(self, MolCnSymmAxisDetector, name)
479  def __init__(self, *args):
480  """__init__(IMP::cnmultifit::MolCnSymmAxisDetector self, int symm_deg, IMP::atom::Hierarchies const & mhs) -> MolCnSymmAxisDetector"""
481  this = _IMP_cnmultifit.new_MolCnSymmAxisDetector(*args)
482  try: self.this.append(this)
483  except: self.this = this
484  def get_pca(self):
485  """get_pca(MolCnSymmAxisDetector self) -> PrincipalComponentAnalysis3D"""
486  return _IMP_cnmultifit.MolCnSymmAxisDetector_get_pca(self)
487 
488  def get_symmetry_axis(self):
489  """get_symmetry_axis(MolCnSymmAxisDetector self) -> Vector3D"""
490  return _IMP_cnmultifit.MolCnSymmAxisDetector_get_symmetry_axis(self)
491 
492  def get_symmetry_axis_index(self):
493  """get_symmetry_axis_index(MolCnSymmAxisDetector self) -> int"""
494  return _IMP_cnmultifit.MolCnSymmAxisDetector_get_symmetry_axis_index(self)
495 
496  def show(self, *args):
497  """
498  show(MolCnSymmAxisDetector self, _ostream out=std::cout)
499  show(MolCnSymmAxisDetector self)
500  """
501  return _IMP_cnmultifit.MolCnSymmAxisDetector_show(self, *args)
502 
503  def calc_symm_score(self, *args):
504  """calc_symm_score(MolCnSymmAxisDetector self, int symm_axis_ind) -> float"""
505  return _IMP_cnmultifit.MolCnSymmAxisDetector_calc_symm_score(self, *args)
506 
507  def __str__(self):
508  """__str__(MolCnSymmAxisDetector self) -> std::string"""
509  return _IMP_cnmultifit.MolCnSymmAxisDetector___str__(self)
510 
511  def __repr__(self):
512  """__repr__(MolCnSymmAxisDetector self) -> std::string"""
513  return _IMP_cnmultifit.MolCnSymmAxisDetector___repr__(self)
514 
515  __swig_destroy__ = _IMP_cnmultifit.delete_MolCnSymmAxisDetector
516  __del__ = lambda self : None;
517 MolCnSymmAxisDetector_swigregister = _IMP_cnmultifit.MolCnSymmAxisDetector_swigregister
518 MolCnSymmAxisDetector_swigregister(MolCnSymmAxisDetector)
519 
520 class AlignSymmetric(_object):
521  """Proxy of C++ IMP::cnmultifit::AlignSymmetric class"""
522  __swig_setmethods__ = {}
523  __setattr__ = lambda self, name, value: _swig_setattr(self, AlignSymmetric, name, value)
524  __swig_getmethods__ = {}
525  __getattr__ = lambda self, name: _swig_getattr(self, AlignSymmetric, name)
526  def __init__(self, *args):
527  """__init__(IMP::cnmultifit::AlignSymmetric self, DensityMap dmap, float threshold, int cn_symm_deg) -> AlignSymmetric"""
528  this = _IMP_cnmultifit.new_AlignSymmetric(*args)
529  try: self.this.append(this)
530  except: self.this = this
531  def get_sorted_principal_values(self):
532  """get_sorted_principal_values(AlignSymmetric self) -> IMP::Floats"""
533  return _IMP_cnmultifit.AlignSymmetric_get_sorted_principal_values(self)
534 
535  def score_alignment(self, *args):
536  """score_alignment(AlignSymmetric self, IMP::atom::Hierarchies mhs, float max_allowed_diff) -> int"""
537  return _IMP_cnmultifit.AlignSymmetric_score_alignment(self, *args)
538 
539  def get_symm_axis_alignments_from_model_to_density(self, *args):
540  """
541  get_symm_axis_alignments_from_model_to_density(AlignSymmetric self, IMP::atom::Hierarchies mhs, bool sample_translation, bool fine_rotation_sampling=True) -> IMP::algebra::Transformation3Ds
542  get_symm_axis_alignments_from_model_to_density(AlignSymmetric self, IMP::atom::Hierarchies mhs, bool sample_translation) -> IMP::algebra::Transformation3Ds
543  """
544  return _IMP_cnmultifit.AlignSymmetric_get_symm_axis_alignments_from_model_to_density(self, *args)
545 
546  def show(self, *args):
547  """
548  show(AlignSymmetric self, _ostream out=std::cout)
549  show(AlignSymmetric self)
550  """
551  return _IMP_cnmultifit.AlignSymmetric_show(self, *args)
552 
553  def __str__(self):
554  """__str__(AlignSymmetric self) -> std::string"""
555  return _IMP_cnmultifit.AlignSymmetric___str__(self)
556 
557  def __repr__(self):
558  """__repr__(AlignSymmetric self) -> std::string"""
559  return _IMP_cnmultifit.AlignSymmetric___repr__(self)
560 
561  __swig_destroy__ = _IMP_cnmultifit.delete_AlignSymmetric
562  __del__ = lambda self : None;
563 AlignSymmetric_swigregister = _IMP_cnmultifit.AlignSymmetric_swigregister
564 AlignSymmetric_swigregister(AlignSymmetric)
565 
566 
567 def generate_cn_transformations(*args):
568  """generate_cn_transformations(IMP::atom::Hierarchies mhs, int symm_deg) -> IMP::algebra::Transformation3Ds"""
569  return _IMP_cnmultifit.generate_cn_transformations(*args)
570 
571 def generate_translations_along_symm_axis(*args):
572  """generate_translations_along_symm_axis(IMP::atom::Hierarchies mhs, int symm_deg) -> IMP::algebra::Transformation3Ds"""
573  return _IMP_cnmultifit.generate_translations_along_symm_axis(*args)
574 
575 def symmetry_local_fitting(*args):
576  """symmetry_local_fitting(IMP::atom::Hierarchies mhs, int cn_symm_deg, int dn_symm_deg, DensityMap dmap, int num_of_trans_to_consider) -> FittingSolutions"""
577  return _IMP_cnmultifit.symmetry_local_fitting(*args)
578 
579 def build_cn_dens_assembly(*args):
580  """
581  build_cn_dens_assembly(DensityMap subunit_dens, DensityHeader asmb_dens_header, Transformation3D monomer_t,
582  int symm_deg) -> DensityMap
583  """
584  return _IMP_cnmultifit.build_cn_dens_assembly(*args)
585 
586 def transform_cn_assembly(*args):
587  """transform_cn_assembly(IMP::atom::Hierarchies mhs, Transformation3D monomer_t)"""
588  return _IMP_cnmultifit.transform_cn_assembly(*args)
589 
590 def fit_cn_assembly(*args):
591  """
592  fit_cn_assembly(IMP::atom::Hierarchies mhs, int dn_symm_deg, DensityMap dmap, float threshold, AlignSymmetric aligner,
593  bool sample_translation=False, bool fine_rotational_sampling=True) -> FittingSolutions
594  fit_cn_assembly(IMP::atom::Hierarchies mhs, int dn_symm_deg, DensityMap dmap, float threshold, AlignSymmetric aligner,
595  bool sample_translation=False) -> FittingSolutions
596  fit_cn_assembly(IMP::atom::Hierarchies mhs, int dn_symm_deg, DensityMap dmap, float threshold, AlignSymmetric aligner) -> FittingSolutions
597  fit_cn_assembly(DensityMap asmb_map, MolCnSymmAxisDetector symm_mol, DensityMap dmap, CnSymmAxisDetector symm_map,
598  int symm_deg, float threshold) -> FittingSolutions
599  """
600  return _IMP_cnmultifit.fit_cn_assembly(*args)
601 
602 def pca_matching(*args):
603  """pca_matching(PrincipalComponentAnalysis3D pca1, PrincipalComponentAnalysis3D pca2, float resolution) -> bool"""
604  return _IMP_cnmultifit.pca_matching(*args)
605 
606 def cn_symm_score(*args):
607  """cn_symm_score(IMP::atom::Hierarchies mhs, Vector3D center, Vector3D direction, int symm_deg) -> float"""
608  return _IMP_cnmultifit.cn_symm_score(*args)
609 
610 def prune_by_pca(*args):
611  """
612  prune_by_pca(std::string const & param_fn, IMP::multifit::FittingSolutionRecords const & sols,
613  int dn=1) -> IMP::multifit::FittingSolutionRecords
614  prune_by_pca(std::string const & param_fn, IMP::multifit::FittingSolutionRecords const & sols) -> IMP::multifit::FittingSolutionRecords
615  """
616  return _IMP_cnmultifit.prune_by_pca(*args)
617 
618 def calc_transformation_around_axis(*args):
619  """calc_transformation_around_axis(Vector3D a, Vector3D b, float angle_rad) -> Transformation3D"""
620  return _IMP_cnmultifit.calc_transformation_around_axis(*args)
621 
622 def get_cn_rmsd(*args):
623  """get_cn_rmsd(IMP::atom::Hierarchies mh1, IMP::atom::Hierarchies mh2) -> float"""
624  return _IMP_cnmultifit.get_cn_rmsd(*args)
625 
626 def do_all_fitting(*args):
627  """
628  do_all_fitting(std::string const param_filename, std::string const chimera_filename="")
629  do_all_fitting(std::string const param_filename)
630  """
631  return _IMP_cnmultifit.do_all_fitting(*args)
632 
633 def get_rmsd_for_models(*args):
634  """
635  get_rmsd_for_models(std::string const param_filename, std::string const trans_filename, std::string const ref_filename,
636  int start_model=0, int end_model=-1) -> IMP::Floats
637  get_rmsd_for_models(std::string const param_filename, std::string const trans_filename, std::string const ref_filename,
638  int start_model=0) -> IMP::Floats
639  get_rmsd_for_models(std::string const param_filename, std::string const trans_filename, std::string const ref_filename) -> IMP::Floats
640  """
641  return _IMP_cnmultifit.get_rmsd_for_models(*args)
642 _all_commands = ["build", "rmsd", "surface",
643  "param", "chimera_models"]
644 
645 
646 def get_module_version():
647  """get_module_version() -> std::string const"""
648  return _IMP_cnmultifit.get_module_version()
649 
650 def get_example_path(*args):
651  """get_example_path(std::string fname) -> std::string"""
652  return _IMP_cnmultifit.get_example_path(*args)
653 
654 def get_data_path(*args):
655  """get_data_path(std::string fname) -> std::string"""
656  return _IMP_cnmultifit.get_data_path(*args)
657 import _version_check
658 _version_check.check_version(get_module_version())
659 
660 # This file is compatible with both classic and new-style classes.
661 
662 
See IMP.container for more information.
void do_all_fitting(const std::string param_filename, const std::string chimera_filename="")
High level interface to build cyclic symmetric complexes.
See IMP.cgal for more information.
Definition: cgal_config.h:107
void set_check_level(CheckLevel tf)
Control runtime checks in the code.
See IMP.base for more information.
Definition: base/Array.h:20
See IMP.score_functor for more information.
Definition: AddScores.h:14
See IMP.statistics for more information.
float cn_symm_score(atom::Hierarchies mhs, const algebra::Vector3D &center, const algebra::Vector3D &direction, int symm_deg)
scores an input vector as a symmetry axis
See IMP.kernel for more information.
See IMP.multifit for more information.
See IMP.em for more information.
Definition: CoarseCC.h:23
float get_cn_rmsd(atom::Hierarchies mh1, atom::Hierarchies mh2)
Find correspondence between the two rings and calculate rmsd.
See IMP.core for more information.
See IMP.algebra for more information.
void show(Hierarchy h, std::ostream &out=std::cout)
Print out a molecular hierarchy.
em::FittingSolutions fit_cn_assembly(atom::Hierarchies mhs, int dn_symm_deg, em::DensityMap *dmap, float threshold, const AlignSymmetric &aligner, bool sample_translation=false, bool fine_rotational_sampling=true)
Fit a symmetric model to its density.
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