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IMP Reference Guide  2.6.1
The Integrative Modeling Platform
rotamer/__init__.py
1 # This file was automatically generated by SWIG (http://www.swig.org).
2 # Version 3.0.7
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 # This wrapper is part of IMP,
8 # Copyright 2007-2016 IMP Inventors. All rights reserved.
9 
10 from __future__ import print_function, division, absolute_import
11 
12 
13 
14 
15 from sys import version_info
16 if version_info >= (2, 6, 0):
17  def swig_import_helper():
18  from os.path import dirname
19  import imp
20  fp = None
21  try:
22  fp, pathname, description = imp.find_module('_IMP_rotamer', [dirname(__file__)])
23  except ImportError:
24  import _IMP_rotamer
25  return _IMP_rotamer
26  if fp is not None:
27  try:
28  _mod = imp.load_module('_IMP_rotamer', fp, pathname, description)
29  finally:
30  fp.close()
31  return _mod
32  _IMP_rotamer = swig_import_helper()
33  del swig_import_helper
34 else:
35  import _IMP_rotamer
36 del version_info
37 try:
38  _swig_property = property
39 except NameError:
40  pass # Python < 2.2 doesn't have 'property'.
41 
42 
43 def _swig_setattr_nondynamic(self, class_type, name, value, static=1):
44  if (name == "thisown"):
45  return self.this.own(value)
46  if (name == "this"):
47  if type(value).__name__ == 'SwigPyObject':
48  self.__dict__[name] = value
49  return
50  method = class_type.__swig_setmethods__.get(name, None)
51  if method:
52  return method(self, value)
53  if (not static):
54  object.__setattr__(self, name, value)
55  else:
56  raise AttributeError("You cannot add attributes to %s" % self)
57 
58 
59 def _swig_setattr(self, class_type, name, value):
60  return _swig_setattr_nondynamic(self, class_type, name, value, 0)
61 
62 
63 def _swig_getattr_nondynamic(self, class_type, name, static=1):
64  if (name == "thisown"):
65  return self.this.own()
66  method = class_type.__swig_getmethods__.get(name, None)
67  if method:
68  return method(self)
69  if (not static):
70  return object.__getattr__(self, name)
71  else:
72  raise AttributeError(name)
73 
74 def _swig_getattr(self, class_type, name):
75  return _swig_getattr_nondynamic(self, class_type, name, 0)
76 
77 
78 def _swig_repr(self):
79  try:
80  strthis = "proxy of " + self.this.__repr__()
81  except:
82  strthis = ""
83  return "<%s.%s; %s >" % (self.__class__.__module__, self.__class__.__name__, strthis,)
84 
85 try:
86  _object = object
87  _newclass = 1
88 except AttributeError:
89  class _object:
90  pass
91  _newclass = 0
92 
93 
94 
95 def _swig_setattr_nondynamic_method(set):
96  def set_attr(self, name, value):
97  if (name == "thisown"):
98  return self.this.own(value)
99  if hasattr(self, name) or (name == "this"):
100  set(self, name, value)
101  else:
102  raise AttributeError("You cannot add attributes to %s" % self)
103  return set_attr
104 
105 
106 try:
107  import weakref
108  weakref_proxy = weakref.proxy
109 except:
110  weakref_proxy = lambda x: x
111 
112 
113 class IMP_ROTAMER_SwigPyIterator(object):
114  """Proxy of C++ swig::IMP_ROTAMER_SwigPyIterator class"""
115  thisown = _swig_property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc='The membership flag')
116 
117  def __init__(self, *args, **kwargs):
118  raise AttributeError("No constructor defined - class is abstract")
119  __repr__ = _swig_repr
120  __swig_destroy__ = _IMP_rotamer.delete_IMP_ROTAMER_SwigPyIterator
121  __del__ = lambda self: None
122 
123  def value(self):
124  """value(IMP_ROTAMER_SwigPyIterator self) -> PyObject *"""
125  return _IMP_rotamer.IMP_ROTAMER_SwigPyIterator_value(self)
126 
127 
128  def incr(self, n=1):
129  """
130  incr(IMP_ROTAMER_SwigPyIterator self, size_t n=1) -> IMP_ROTAMER_SwigPyIterator
131  incr(IMP_ROTAMER_SwigPyIterator self) -> IMP_ROTAMER_SwigPyIterator
132  """
133  return _IMP_rotamer.IMP_ROTAMER_SwigPyIterator_incr(self, n)
134 
135 
136  def decr(self, n=1):
137  """
138  decr(IMP_ROTAMER_SwigPyIterator self, size_t n=1) -> IMP_ROTAMER_SwigPyIterator
139  decr(IMP_ROTAMER_SwigPyIterator self) -> IMP_ROTAMER_SwigPyIterator
140  """
141  return _IMP_rotamer.IMP_ROTAMER_SwigPyIterator_decr(self, n)
142 
143 
144  def distance(self, x):
145  """distance(IMP_ROTAMER_SwigPyIterator self, IMP_ROTAMER_SwigPyIterator x) -> ptrdiff_t"""
146  return _IMP_rotamer.IMP_ROTAMER_SwigPyIterator_distance(self, x)
147 
148 
149  def equal(self, x):
150  """equal(IMP_ROTAMER_SwigPyIterator self, IMP_ROTAMER_SwigPyIterator x) -> bool"""
151  return _IMP_rotamer.IMP_ROTAMER_SwigPyIterator_equal(self, x)
152 
153 
154  def copy(self):
155  """copy(IMP_ROTAMER_SwigPyIterator self) -> IMP_ROTAMER_SwigPyIterator"""
156  return _IMP_rotamer.IMP_ROTAMER_SwigPyIterator_copy(self)
157 
158 
159  def next(self):
160  """next(IMP_ROTAMER_SwigPyIterator self) -> PyObject *"""
161  return _IMP_rotamer.IMP_ROTAMER_SwigPyIterator_next(self)
162 
163 
164  def __next__(self):
165  """__next__(IMP_ROTAMER_SwigPyIterator self) -> PyObject *"""
166  return _IMP_rotamer.IMP_ROTAMER_SwigPyIterator___next__(self)
167 
168 
169  def previous(self):
170  """previous(IMP_ROTAMER_SwigPyIterator self) -> PyObject *"""
171  return _IMP_rotamer.IMP_ROTAMER_SwigPyIterator_previous(self)
172 
173 
174  def advance(self, n):
175  """advance(IMP_ROTAMER_SwigPyIterator self, ptrdiff_t n) -> IMP_ROTAMER_SwigPyIterator"""
176  return _IMP_rotamer.IMP_ROTAMER_SwigPyIterator_advance(self, n)
177 
178 
179  def __eq__(self, x):
180  """__eq__(IMP_ROTAMER_SwigPyIterator self, IMP_ROTAMER_SwigPyIterator x) -> bool"""
181  return _IMP_rotamer.IMP_ROTAMER_SwigPyIterator___eq__(self, x)
182 
183 
184  def __ne__(self, x):
185  """__ne__(IMP_ROTAMER_SwigPyIterator self, IMP_ROTAMER_SwigPyIterator x) -> bool"""
186  return _IMP_rotamer.IMP_ROTAMER_SwigPyIterator___ne__(self, x)
187 
188 
189  def __iadd__(self, n):
190  """__iadd__(IMP_ROTAMER_SwigPyIterator self, ptrdiff_t n) -> IMP_ROTAMER_SwigPyIterator"""
191  return _IMP_rotamer.IMP_ROTAMER_SwigPyIterator___iadd__(self, n)
192 
193 
194  def __isub__(self, n):
195  """__isub__(IMP_ROTAMER_SwigPyIterator self, ptrdiff_t n) -> IMP_ROTAMER_SwigPyIterator"""
196  return _IMP_rotamer.IMP_ROTAMER_SwigPyIterator___isub__(self, n)
197 
198 
199  def __add__(self, n):
200  """__add__(IMP_ROTAMER_SwigPyIterator self, ptrdiff_t n) -> IMP_ROTAMER_SwigPyIterator"""
201  return _IMP_rotamer.IMP_ROTAMER_SwigPyIterator___add__(self, n)
202 
203 
204  def __sub__(self, *args):
205  """
206  __sub__(IMP_ROTAMER_SwigPyIterator self, ptrdiff_t n) -> IMP_ROTAMER_SwigPyIterator
207  __sub__(IMP_ROTAMER_SwigPyIterator self, IMP_ROTAMER_SwigPyIterator x) -> ptrdiff_t
208  """
209  return _IMP_rotamer.IMP_ROTAMER_SwigPyIterator___sub__(self, *args)
210 
211  def __iter__(self):
212  return self
213 IMP_ROTAMER_SwigPyIterator_swigregister = _IMP_rotamer.IMP_ROTAMER_SwigPyIterator_swigregister
214 IMP_ROTAMER_SwigPyIterator_swigregister(IMP_ROTAMER_SwigPyIterator)
215 
216 
217 _value_types=[]
218 _object_types=[]
219 _raii_types=[]
220 _plural_types=[]
221 
222 
223 _IMP_rotamer.IMP_DEBUG_swigconstant(_IMP_rotamer)
224 IMP_DEBUG = _IMP_rotamer.IMP_DEBUG
225 
226 _IMP_rotamer.IMP_RELEASE_swigconstant(_IMP_rotamer)
227 IMP_RELEASE = _IMP_rotamer.IMP_RELEASE
228 
229 _IMP_rotamer.IMP_SILENT_swigconstant(_IMP_rotamer)
230 IMP_SILENT = _IMP_rotamer.IMP_SILENT
231 
232 _IMP_rotamer.IMP_PROGRESS_swigconstant(_IMP_rotamer)
233 IMP_PROGRESS = _IMP_rotamer.IMP_PROGRESS
234 
235 _IMP_rotamer.IMP_TERSE_swigconstant(_IMP_rotamer)
236 IMP_TERSE = _IMP_rotamer.IMP_TERSE
237 
238 _IMP_rotamer.IMP_VERBOSE_swigconstant(_IMP_rotamer)
239 IMP_VERBOSE = _IMP_rotamer.IMP_VERBOSE
240 
241 _IMP_rotamer.IMP_MEMORY_swigconstant(_IMP_rotamer)
242 IMP_MEMORY = _IMP_rotamer.IMP_MEMORY
243 
244 _IMP_rotamer.IMP_NONE_swigconstant(_IMP_rotamer)
245 IMP_NONE = _IMP_rotamer.IMP_NONE
246 
247 _IMP_rotamer.IMP_USAGE_swigconstant(_IMP_rotamer)
248 IMP_USAGE = _IMP_rotamer.IMP_USAGE
249 
250 _IMP_rotamer.IMP_INTERNAL_swigconstant(_IMP_rotamer)
251 IMP_INTERNAL = _IMP_rotamer.IMP_INTERNAL
252 
253 _IMP_rotamer.IMP_KERNEL_HAS_LOG4CXX_swigconstant(_IMP_rotamer)
254 IMP_KERNEL_HAS_LOG4CXX = _IMP_rotamer.IMP_KERNEL_HAS_LOG4CXX
255 
256 _IMP_rotamer.IMP_COMPILER_HAS_AUTO_swigconstant(_IMP_rotamer)
257 IMP_COMPILER_HAS_AUTO = _IMP_rotamer.IMP_COMPILER_HAS_AUTO
258 
259 _IMP_rotamer.IMP_COMPILER_HAS_DEBUG_VECTOR_swigconstant(_IMP_rotamer)
260 IMP_COMPILER_HAS_DEBUG_VECTOR = _IMP_rotamer.IMP_COMPILER_HAS_DEBUG_VECTOR
261 
262 _IMP_rotamer.IMP_COMPILER_HAS_UNIQUE_PTR_swigconstant(_IMP_rotamer)
263 IMP_COMPILER_HAS_UNIQUE_PTR = _IMP_rotamer.IMP_COMPILER_HAS_UNIQUE_PTR
264 
265 _IMP_rotamer.IMP_KERNEL_HAS_BOOST_RANDOM_swigconstant(_IMP_rotamer)
266 IMP_KERNEL_HAS_BOOST_RANDOM = _IMP_rotamer.IMP_KERNEL_HAS_BOOST_RANDOM
267 
268 _IMP_rotamer.IMP_KERNEL_HAS_GPERFTOOLS_swigconstant(_IMP_rotamer)
269 IMP_KERNEL_HAS_GPERFTOOLS = _IMP_rotamer.IMP_KERNEL_HAS_GPERFTOOLS
270 
271 _IMP_rotamer.IMP_KERNEL_HAS_TCMALLOC_HEAPCHECKER_swigconstant(_IMP_rotamer)
272 IMP_KERNEL_HAS_TCMALLOC_HEAPCHECKER = _IMP_rotamer.IMP_KERNEL_HAS_TCMALLOC_HEAPCHECKER
273 
274 _IMP_rotamer.IMP_KERNEL_HAS_TCMALLOC_HEAPPROFILER_swigconstant(_IMP_rotamer)
275 IMP_KERNEL_HAS_TCMALLOC_HEAPPROFILER = _IMP_rotamer.IMP_KERNEL_HAS_TCMALLOC_HEAPPROFILER
276 
277 _IMP_rotamer.IMPKERNEL_SHOW_WARNINGS_swigconstant(_IMP_rotamer)
278 IMPKERNEL_SHOW_WARNINGS = _IMP_rotamer.IMPKERNEL_SHOW_WARNINGS
279 
280 import sys
281 class _DirectorObjects(object):
282  """@internal Simple class to keep references to director objects
283  to prevent premature deletion."""
284  def __init__(self):
285  self._objects = []
286  def register(self, obj):
287  """Take a reference to a director object; will only work for
288  refcounted C++ classes"""
289  if hasattr(obj, 'get_ref_count'):
290  self._objects.append(obj)
291  def cleanup(self):
292  """Only drop our reference and allow cleanup by Python if no other
293  Python references exist (we hold 3 references: one in self._objects,
294  one in x, and one in the argument list for getrefcount) *and* no
295  other C++ references exist (the Python object always holds one)"""
296  objs = [x for x in self._objects if sys.getrefcount(x) > 3 \
297  or x.get_ref_count() > 1]
298 # Do in two steps so the references are kept until the end of the
299 # function (deleting references may trigger a fresh call to this method)
300  self._objects = objs
301  def get_object_count(self):
302  """Get number of director objects (useful for testing only)"""
303  return len(self._objects)
304 _director_objects = _DirectorObjects()
305 
306 class _ostream(object):
307  """Proxy of C++ std::ostream class"""
308  thisown = _swig_property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc='The membership flag')
309 
310  def __init__(self, *args, **kwargs):
311  raise AttributeError("No constructor defined")
312  __repr__ = _swig_repr
313 
314  def write(self, osa_buf):
315  """write(_ostream self, char const * osa_buf)"""
316  return _IMP_rotamer._ostream_write(self, osa_buf)
317 
318 _ostream_swigregister = _IMP_rotamer._ostream_swigregister
319 _ostream_swigregister(_ostream)
320 
321 
322 _IMP_rotamer.IMP_COMPILER_HAS_OVERRIDE_swigconstant(_IMP_rotamer)
323 IMP_COMPILER_HAS_OVERRIDE = _IMP_rotamer.IMP_COMPILER_HAS_OVERRIDE
324 
325 _IMP_rotamer.IMP_COMPILER_HAS_FINAL_swigconstant(_IMP_rotamer)
326 IMP_COMPILER_HAS_FINAL = _IMP_rotamer.IMP_COMPILER_HAS_FINAL
327 
328 _IMP_rotamer.IMP_HAS_NOEXCEPT_swigconstant(_IMP_rotamer)
329 IMP_HAS_NOEXCEPT = _IMP_rotamer.IMP_HAS_NOEXCEPT
330 import IMP
331 
332 _IMP_rotamer.IMP_CGAL_HAS_BOOST_FILESYSTEM_swigconstant(_IMP_rotamer)
333 IMP_CGAL_HAS_BOOST_FILESYSTEM = _IMP_rotamer.IMP_CGAL_HAS_BOOST_FILESYSTEM
334 
335 _IMP_rotamer.IMP_CGAL_HAS_BOOST_PROGRAMOPTIONS_swigconstant(_IMP_rotamer)
336 IMP_CGAL_HAS_BOOST_PROGRAMOPTIONS = _IMP_rotamer.IMP_CGAL_HAS_BOOST_PROGRAMOPTIONS
337 
338 _IMP_rotamer.IMP_CGAL_HAS_BOOST_RANDOM_swigconstant(_IMP_rotamer)
339 IMP_CGAL_HAS_BOOST_RANDOM = _IMP_rotamer.IMP_CGAL_HAS_BOOST_RANDOM
340 
341 _IMP_rotamer.IMP_CGAL_HAS_BOOST_SYSTEM_swigconstant(_IMP_rotamer)
342 IMP_CGAL_HAS_BOOST_SYSTEM = _IMP_rotamer.IMP_CGAL_HAS_BOOST_SYSTEM
343 
344 _IMP_rotamer.IMPCGAL_SHOW_WARNINGS_swigconstant(_IMP_rotamer)
345 IMPCGAL_SHOW_WARNINGS = _IMP_rotamer.IMPCGAL_SHOW_WARNINGS
346 import IMP.cgal
347 
348 _IMP_rotamer.IMP_ALGEBRA_HAS_IMP_CGAL_swigconstant(_IMP_rotamer)
349 IMP_ALGEBRA_HAS_IMP_CGAL = _IMP_rotamer.IMP_ALGEBRA_HAS_IMP_CGAL
350 
351 _IMP_rotamer.IMP_ALGEBRA_HAS_BOOST_FILESYSTEM_swigconstant(_IMP_rotamer)
352 IMP_ALGEBRA_HAS_BOOST_FILESYSTEM = _IMP_rotamer.IMP_ALGEBRA_HAS_BOOST_FILESYSTEM
353 
354 _IMP_rotamer.IMP_ALGEBRA_HAS_BOOST_PROGRAMOPTIONS_swigconstant(_IMP_rotamer)
355 IMP_ALGEBRA_HAS_BOOST_PROGRAMOPTIONS = _IMP_rotamer.IMP_ALGEBRA_HAS_BOOST_PROGRAMOPTIONS
356 
357 _IMP_rotamer.IMP_ALGEBRA_HAS_BOOST_RANDOM_swigconstant(_IMP_rotamer)
358 IMP_ALGEBRA_HAS_BOOST_RANDOM = _IMP_rotamer.IMP_ALGEBRA_HAS_BOOST_RANDOM
359 
360 _IMP_rotamer.IMP_ALGEBRA_HAS_BOOST_SYSTEM_swigconstant(_IMP_rotamer)
361 IMP_ALGEBRA_HAS_BOOST_SYSTEM = _IMP_rotamer.IMP_ALGEBRA_HAS_BOOST_SYSTEM
362 
363 _IMP_rotamer.IMP_ALGEBRA_HAS_CGAL_swigconstant(_IMP_rotamer)
364 IMP_ALGEBRA_HAS_CGAL = _IMP_rotamer.IMP_ALGEBRA_HAS_CGAL
365 
366 _IMP_rotamer.IMP_ALGEBRA_HAS_ANN_swigconstant(_IMP_rotamer)
367 IMP_ALGEBRA_HAS_ANN = _IMP_rotamer.IMP_ALGEBRA_HAS_ANN
368 
369 _IMP_rotamer.IMPALGEBRA_SHOW_WARNINGS_swigconstant(_IMP_rotamer)
370 IMPALGEBRA_SHOW_WARNINGS = _IMP_rotamer.IMPALGEBRA_SHOW_WARNINGS
371 import IMP.algebra
372 
373 _IMP_rotamer.IMP_DISPLAY_HAS_IMP_CGAL_swigconstant(_IMP_rotamer)
374 IMP_DISPLAY_HAS_IMP_CGAL = _IMP_rotamer.IMP_DISPLAY_HAS_IMP_CGAL
375 
376 _IMP_rotamer.IMP_DISPLAY_HAS_BOOST_FILESYSTEM_swigconstant(_IMP_rotamer)
377 IMP_DISPLAY_HAS_BOOST_FILESYSTEM = _IMP_rotamer.IMP_DISPLAY_HAS_BOOST_FILESYSTEM
378 
379 _IMP_rotamer.IMP_DISPLAY_HAS_BOOST_PROGRAMOPTIONS_swigconstant(_IMP_rotamer)
380 IMP_DISPLAY_HAS_BOOST_PROGRAMOPTIONS = _IMP_rotamer.IMP_DISPLAY_HAS_BOOST_PROGRAMOPTIONS
381 
382 _IMP_rotamer.IMP_DISPLAY_HAS_BOOST_RANDOM_swigconstant(_IMP_rotamer)
383 IMP_DISPLAY_HAS_BOOST_RANDOM = _IMP_rotamer.IMP_DISPLAY_HAS_BOOST_RANDOM
384 
385 _IMP_rotamer.IMP_DISPLAY_HAS_BOOST_SYSTEM_swigconstant(_IMP_rotamer)
386 IMP_DISPLAY_HAS_BOOST_SYSTEM = _IMP_rotamer.IMP_DISPLAY_HAS_BOOST_SYSTEM
387 
388 _IMP_rotamer.IMP_DISPLAY_HAS_CGAL_swigconstant(_IMP_rotamer)
389 IMP_DISPLAY_HAS_CGAL = _IMP_rotamer.IMP_DISPLAY_HAS_CGAL
390 
391 _IMP_rotamer.IMPDISPLAY_SHOW_WARNINGS_swigconstant(_IMP_rotamer)
392 IMPDISPLAY_SHOW_WARNINGS = _IMP_rotamer.IMPDISPLAY_SHOW_WARNINGS
393 import IMP.display
394 
395 _IMP_rotamer.IMP_SCORE_FUNCTOR_HAS_IMP_CGAL_swigconstant(_IMP_rotamer)
396 IMP_SCORE_FUNCTOR_HAS_IMP_CGAL = _IMP_rotamer.IMP_SCORE_FUNCTOR_HAS_IMP_CGAL
397 
398 _IMP_rotamer.IMP_SCORE_FUNCTOR_HAS_BOOST_FILESYSTEM_swigconstant(_IMP_rotamer)
399 IMP_SCORE_FUNCTOR_HAS_BOOST_FILESYSTEM = _IMP_rotamer.IMP_SCORE_FUNCTOR_HAS_BOOST_FILESYSTEM
400 
401 _IMP_rotamer.IMP_SCORE_FUNCTOR_HAS_BOOST_PROGRAMOPTIONS_swigconstant(_IMP_rotamer)
402 IMP_SCORE_FUNCTOR_HAS_BOOST_PROGRAMOPTIONS = _IMP_rotamer.IMP_SCORE_FUNCTOR_HAS_BOOST_PROGRAMOPTIONS
403 
404 _IMP_rotamer.IMP_SCORE_FUNCTOR_HAS_BOOST_RANDOM_swigconstant(_IMP_rotamer)
405 IMP_SCORE_FUNCTOR_HAS_BOOST_RANDOM = _IMP_rotamer.IMP_SCORE_FUNCTOR_HAS_BOOST_RANDOM
406 
407 _IMP_rotamer.IMP_SCORE_FUNCTOR_HAS_BOOST_SYSTEM_swigconstant(_IMP_rotamer)
408 IMP_SCORE_FUNCTOR_HAS_BOOST_SYSTEM = _IMP_rotamer.IMP_SCORE_FUNCTOR_HAS_BOOST_SYSTEM
409 
410 _IMP_rotamer.IMP_SCORE_FUNCTOR_HAS_CGAL_swigconstant(_IMP_rotamer)
411 IMP_SCORE_FUNCTOR_HAS_CGAL = _IMP_rotamer.IMP_SCORE_FUNCTOR_HAS_CGAL
412 
413 _IMP_rotamer.IMP_SCORE_FUNCTOR_HAS_HDF5_swigconstant(_IMP_rotamer)
414 IMP_SCORE_FUNCTOR_HAS_HDF5 = _IMP_rotamer.IMP_SCORE_FUNCTOR_HAS_HDF5
415 
416 _IMP_rotamer.IMPSCOREFUNCTOR_SHOW_WARNINGS_swigconstant(_IMP_rotamer)
417 IMPSCOREFUNCTOR_SHOW_WARNINGS = _IMP_rotamer.IMPSCOREFUNCTOR_SHOW_WARNINGS
418 import IMP.score_functor
419 
420 _IMP_rotamer.IMP_CORE_HAS_IMP_CGAL_swigconstant(_IMP_rotamer)
421 IMP_CORE_HAS_IMP_CGAL = _IMP_rotamer.IMP_CORE_HAS_IMP_CGAL
422 
423 _IMP_rotamer.IMP_CORE_HAS_IMP_KERNEL_swigconstant(_IMP_rotamer)
424 IMP_CORE_HAS_IMP_KERNEL = _IMP_rotamer.IMP_CORE_HAS_IMP_KERNEL
425 
426 _IMP_rotamer.IMP_CORE_HAS_BOOST_FILESYSTEM_swigconstant(_IMP_rotamer)
427 IMP_CORE_HAS_BOOST_FILESYSTEM = _IMP_rotamer.IMP_CORE_HAS_BOOST_FILESYSTEM
428 
429 _IMP_rotamer.IMP_CORE_HAS_BOOST_PROGRAMOPTIONS_swigconstant(_IMP_rotamer)
430 IMP_CORE_HAS_BOOST_PROGRAMOPTIONS = _IMP_rotamer.IMP_CORE_HAS_BOOST_PROGRAMOPTIONS
431 
432 _IMP_rotamer.IMP_CORE_HAS_BOOST_RANDOM_swigconstant(_IMP_rotamer)
433 IMP_CORE_HAS_BOOST_RANDOM = _IMP_rotamer.IMP_CORE_HAS_BOOST_RANDOM
434 
435 _IMP_rotamer.IMP_CORE_HAS_BOOST_SYSTEM_swigconstant(_IMP_rotamer)
436 IMP_CORE_HAS_BOOST_SYSTEM = _IMP_rotamer.IMP_CORE_HAS_BOOST_SYSTEM
437 
438 _IMP_rotamer.IMP_CORE_HAS_CGAL_swigconstant(_IMP_rotamer)
439 IMP_CORE_HAS_CGAL = _IMP_rotamer.IMP_CORE_HAS_CGAL
440 
441 _IMP_rotamer.IMP_CORE_HAS_HDF5_swigconstant(_IMP_rotamer)
442 IMP_CORE_HAS_HDF5 = _IMP_rotamer.IMP_CORE_HAS_HDF5
443 
444 _IMP_rotamer.IMPCORE_SHOW_WARNINGS_swigconstant(_IMP_rotamer)
445 IMPCORE_SHOW_WARNINGS = _IMP_rotamer.IMPCORE_SHOW_WARNINGS
446 import IMP.core
447 
448 _IMP_rotamer.IMP_CONTAINER_HAS_IMP_ALGEBRA_swigconstant(_IMP_rotamer)
449 IMP_CONTAINER_HAS_IMP_ALGEBRA = _IMP_rotamer.IMP_CONTAINER_HAS_IMP_ALGEBRA
450 
451 _IMP_rotamer.IMP_CONTAINER_HAS_IMP_CGAL_swigconstant(_IMP_rotamer)
452 IMP_CONTAINER_HAS_IMP_CGAL = _IMP_rotamer.IMP_CONTAINER_HAS_IMP_CGAL
453 
454 _IMP_rotamer.IMP_CONTAINER_HAS_IMP_DISPLAY_swigconstant(_IMP_rotamer)
455 IMP_CONTAINER_HAS_IMP_DISPLAY = _IMP_rotamer.IMP_CONTAINER_HAS_IMP_DISPLAY
456 
457 _IMP_rotamer.IMP_CONTAINER_HAS_IMP_KERNEL_swigconstant(_IMP_rotamer)
458 IMP_CONTAINER_HAS_IMP_KERNEL = _IMP_rotamer.IMP_CONTAINER_HAS_IMP_KERNEL
459 
460 _IMP_rotamer.IMP_CONTAINER_HAS_IMP_SCORE_FUNCTOR_swigconstant(_IMP_rotamer)
461 IMP_CONTAINER_HAS_IMP_SCORE_FUNCTOR = _IMP_rotamer.IMP_CONTAINER_HAS_IMP_SCORE_FUNCTOR
462 
463 _IMP_rotamer.IMP_CONTAINER_HAS_BOOST_FILESYSTEM_swigconstant(_IMP_rotamer)
464 IMP_CONTAINER_HAS_BOOST_FILESYSTEM = _IMP_rotamer.IMP_CONTAINER_HAS_BOOST_FILESYSTEM
465 
466 _IMP_rotamer.IMP_CONTAINER_HAS_BOOST_PROGRAMOPTIONS_swigconstant(_IMP_rotamer)
467 IMP_CONTAINER_HAS_BOOST_PROGRAMOPTIONS = _IMP_rotamer.IMP_CONTAINER_HAS_BOOST_PROGRAMOPTIONS
468 
469 _IMP_rotamer.IMP_CONTAINER_HAS_BOOST_RANDOM_swigconstant(_IMP_rotamer)
470 IMP_CONTAINER_HAS_BOOST_RANDOM = _IMP_rotamer.IMP_CONTAINER_HAS_BOOST_RANDOM
471 
472 _IMP_rotamer.IMP_CONTAINER_HAS_BOOST_SYSTEM_swigconstant(_IMP_rotamer)
473 IMP_CONTAINER_HAS_BOOST_SYSTEM = _IMP_rotamer.IMP_CONTAINER_HAS_BOOST_SYSTEM
474 
475 _IMP_rotamer.IMP_CONTAINER_HAS_CGAL_swigconstant(_IMP_rotamer)
476 IMP_CONTAINER_HAS_CGAL = _IMP_rotamer.IMP_CONTAINER_HAS_CGAL
477 
478 _IMP_rotamer.IMP_CONTAINER_HAS_HDF5_swigconstant(_IMP_rotamer)
479 IMP_CONTAINER_HAS_HDF5 = _IMP_rotamer.IMP_CONTAINER_HAS_HDF5
480 
481 _IMP_rotamer.IMPCONTAINER_SHOW_WARNINGS_swigconstant(_IMP_rotamer)
482 IMPCONTAINER_SHOW_WARNINGS = _IMP_rotamer.IMPCONTAINER_SHOW_WARNINGS
483 import IMP.container
484 
485 _IMP_rotamer.IMP_ATOM_HAS_IMP_CGAL_swigconstant(_IMP_rotamer)
486 IMP_ATOM_HAS_IMP_CGAL = _IMP_rotamer.IMP_ATOM_HAS_IMP_CGAL
487 
488 _IMP_rotamer.IMP_ATOM_HAS_IMP_KERNEL_swigconstant(_IMP_rotamer)
489 IMP_ATOM_HAS_IMP_KERNEL = _IMP_rotamer.IMP_ATOM_HAS_IMP_KERNEL
490 
491 _IMP_rotamer.IMP_ATOM_HAS_IMP_SCORE_FUNCTOR_swigconstant(_IMP_rotamer)
492 IMP_ATOM_HAS_IMP_SCORE_FUNCTOR = _IMP_rotamer.IMP_ATOM_HAS_IMP_SCORE_FUNCTOR
493 
494 _IMP_rotamer.IMP_ATOM_HAS_BOOST_PROGRAMOPTIONS_swigconstant(_IMP_rotamer)
495 IMP_ATOM_HAS_BOOST_PROGRAMOPTIONS = _IMP_rotamer.IMP_ATOM_HAS_BOOST_PROGRAMOPTIONS
496 
497 _IMP_rotamer.IMP_ATOM_HAS_BOOST_RANDOM_swigconstant(_IMP_rotamer)
498 IMP_ATOM_HAS_BOOST_RANDOM = _IMP_rotamer.IMP_ATOM_HAS_BOOST_RANDOM
499 
500 _IMP_rotamer.IMP_ATOM_HAS_BOOST_REGEX_swigconstant(_IMP_rotamer)
501 IMP_ATOM_HAS_BOOST_REGEX = _IMP_rotamer.IMP_ATOM_HAS_BOOST_REGEX
502 
503 _IMP_rotamer.IMP_ATOM_HAS_BOOST_SYSTEM_swigconstant(_IMP_rotamer)
504 IMP_ATOM_HAS_BOOST_SYSTEM = _IMP_rotamer.IMP_ATOM_HAS_BOOST_SYSTEM
505 
506 _IMP_rotamer.IMP_ATOM_HAS_CGAL_swigconstant(_IMP_rotamer)
507 IMP_ATOM_HAS_CGAL = _IMP_rotamer.IMP_ATOM_HAS_CGAL
508 
509 _IMP_rotamer.IMP_ATOM_HAS_HDF5_swigconstant(_IMP_rotamer)
510 IMP_ATOM_HAS_HDF5 = _IMP_rotamer.IMP_ATOM_HAS_HDF5
511 
512 _IMP_rotamer.IMPATOM_SHOW_WARNINGS_swigconstant(_IMP_rotamer)
513 IMPATOM_SHOW_WARNINGS = _IMP_rotamer.IMPATOM_SHOW_WARNINGS
514 
515 _IMP_rotamer.IMP_ATOM_TYPE_INDEX_swigconstant(_IMP_rotamer)
516 IMP_ATOM_TYPE_INDEX = _IMP_rotamer.IMP_ATOM_TYPE_INDEX
517 
518 _IMP_rotamer.IMP_RESIDUE_TYPE_INDEX_swigconstant(_IMP_rotamer)
519 IMP_RESIDUE_TYPE_INDEX = _IMP_rotamer.IMP_RESIDUE_TYPE_INDEX
520 
521 _IMP_rotamer.IMP_HIERARCHY_TYPE_INDEX_swigconstant(_IMP_rotamer)
522 IMP_HIERARCHY_TYPE_INDEX = _IMP_rotamer.IMP_HIERARCHY_TYPE_INDEX
523 import IMP.atom
524 
525 _IMP_rotamer.IMP_ROTAMER_HAS_IMP_ALGEBRA_swigconstant(_IMP_rotamer)
526 IMP_ROTAMER_HAS_IMP_ALGEBRA = _IMP_rotamer.IMP_ROTAMER_HAS_IMP_ALGEBRA
527 
528 _IMP_rotamer.IMP_ROTAMER_HAS_IMP_CGAL_swigconstant(_IMP_rotamer)
529 IMP_ROTAMER_HAS_IMP_CGAL = _IMP_rotamer.IMP_ROTAMER_HAS_IMP_CGAL
530 
531 _IMP_rotamer.IMP_ROTAMER_HAS_IMP_CONTAINER_swigconstant(_IMP_rotamer)
532 IMP_ROTAMER_HAS_IMP_CONTAINER = _IMP_rotamer.IMP_ROTAMER_HAS_IMP_CONTAINER
533 
534 _IMP_rotamer.IMP_ROTAMER_HAS_IMP_DISPLAY_swigconstant(_IMP_rotamer)
535 IMP_ROTAMER_HAS_IMP_DISPLAY = _IMP_rotamer.IMP_ROTAMER_HAS_IMP_DISPLAY
536 
537 _IMP_rotamer.IMP_ROTAMER_HAS_IMP_KERNEL_swigconstant(_IMP_rotamer)
538 IMP_ROTAMER_HAS_IMP_KERNEL = _IMP_rotamer.IMP_ROTAMER_HAS_IMP_KERNEL
539 
540 _IMP_rotamer.IMP_ROTAMER_HAS_IMP_SCORE_FUNCTOR_swigconstant(_IMP_rotamer)
541 IMP_ROTAMER_HAS_IMP_SCORE_FUNCTOR = _IMP_rotamer.IMP_ROTAMER_HAS_IMP_SCORE_FUNCTOR
542 
543 _IMP_rotamer.IMP_ROTAMER_HAS_BOOST_FILESYSTEM_swigconstant(_IMP_rotamer)
544 IMP_ROTAMER_HAS_BOOST_FILESYSTEM = _IMP_rotamer.IMP_ROTAMER_HAS_BOOST_FILESYSTEM
545 
546 _IMP_rotamer.IMP_ROTAMER_HAS_BOOST_PROGRAMOPTIONS_swigconstant(_IMP_rotamer)
547 IMP_ROTAMER_HAS_BOOST_PROGRAMOPTIONS = _IMP_rotamer.IMP_ROTAMER_HAS_BOOST_PROGRAMOPTIONS
548 
549 _IMP_rotamer.IMP_ROTAMER_HAS_BOOST_RANDOM_swigconstant(_IMP_rotamer)
550 IMP_ROTAMER_HAS_BOOST_RANDOM = _IMP_rotamer.IMP_ROTAMER_HAS_BOOST_RANDOM
551 
552 _IMP_rotamer.IMP_ROTAMER_HAS_BOOST_REGEX_swigconstant(_IMP_rotamer)
553 IMP_ROTAMER_HAS_BOOST_REGEX = _IMP_rotamer.IMP_ROTAMER_HAS_BOOST_REGEX
554 
555 _IMP_rotamer.IMP_ROTAMER_HAS_BOOST_SYSTEM_swigconstant(_IMP_rotamer)
556 IMP_ROTAMER_HAS_BOOST_SYSTEM = _IMP_rotamer.IMP_ROTAMER_HAS_BOOST_SYSTEM
557 
558 _IMP_rotamer.IMP_ROTAMER_HAS_CGAL_swigconstant(_IMP_rotamer)
559 IMP_ROTAMER_HAS_CGAL = _IMP_rotamer.IMP_ROTAMER_HAS_CGAL
560 
561 _IMP_rotamer.IMP_ROTAMER_HAS_HDF5_swigconstant(_IMP_rotamer)
562 IMP_ROTAMER_HAS_HDF5 = _IMP_rotamer.IMP_ROTAMER_HAS_HDF5
563 
564 _IMP_rotamer.IMPROTAMER_SHOW_WARNINGS_swigconstant(_IMP_rotamer)
565 IMPROTAMER_SHOW_WARNINGS = _IMP_rotamer.IMPROTAMER_SHOW_WARNINGS
566 
567 RotamerAngleTuples=list
568 _plural_types.append("RotamerAngleTuples")
569 _value_types.append("RotamerAngleTuple")
570 
571 
572 ResidueRotamers=list
573 _plural_types.append("ResidueRotamers")
574 _value_types.append("ResidueRotamer")
575 
576 
577 _object_types.append("RotamerLibrary")
578 
579 
580 def _object_cast_to_RotamerLibrary(o):
581  """_object_cast_to_RotamerLibrary(Object o) -> RotamerLibrary"""
582  return _IMP_rotamer._object_cast_to_RotamerLibrary(o)
583 
584 _object_types.append("RotamerCalculator")
585 
586 
587 def _object_cast_to_RotamerCalculator(o):
588  """_object_cast_to_RotamerCalculator(Object o) -> RotamerCalculator"""
589  return _IMP_rotamer._object_cast_to_RotamerCalculator(o)
590 class RotamerAngleTuple(object):
591  """Proxy of C++ IMP::rotamer::RotamerAngleTuple class"""
592  thisown = _swig_property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc='The membership flag')
593 
594  def __init__(self, *args):
595  """
596  __init__(IMP::rotamer::RotamerAngleTuple self) -> RotamerAngleTuple
597  __init__(IMP::rotamer::RotamerAngleTuple self, float chi1, float chi2, float chi3, float chi4, float probability) -> RotamerAngleTuple
598  """
599  this = _IMP_rotamer.new_RotamerAngleTuple(*args)
600  try:
601  self.this.append(this)
602  except:
603  self.this = this
604 
605  def get_chi1(self):
606  """get_chi1(RotamerAngleTuple self) -> float"""
607  return _IMP_rotamer.RotamerAngleTuple_get_chi1(self)
608 
609 
610  def get_chi2(self):
611  """get_chi2(RotamerAngleTuple self) -> float"""
612  return _IMP_rotamer.RotamerAngleTuple_get_chi2(self)
613 
614 
615  def get_chi3(self):
616  """get_chi3(RotamerAngleTuple self) -> float"""
617  return _IMP_rotamer.RotamerAngleTuple_get_chi3(self)
618 
619 
620  def get_chi4(self):
621  """get_chi4(RotamerAngleTuple self) -> float"""
622  return _IMP_rotamer.RotamerAngleTuple_get_chi4(self)
623 
624 
625  def get_probability(self):
626  """get_probability(RotamerAngleTuple self) -> float"""
627  return _IMP_rotamer.RotamerAngleTuple_get_probability(self)
628 
629 
630  def show(self, *args):
631  """
632  show(RotamerAngleTuple self, _ostream out)
633  show(RotamerAngleTuple self)
634  """
635  return _IMP_rotamer.RotamerAngleTuple_show(self, *args)
636 
637 
638  def __str__(self):
639  """__str__(RotamerAngleTuple self) -> std::string"""
640  return _IMP_rotamer.RotamerAngleTuple___str__(self)
641 
642 
643  def __repr__(self):
644  """__repr__(RotamerAngleTuple self) -> std::string"""
645  return _IMP_rotamer.RotamerAngleTuple___repr__(self)
646 
647  __swig_destroy__ = _IMP_rotamer.delete_RotamerAngleTuple
648  __del__ = lambda self: None
649 RotamerAngleTuple_swigregister = _IMP_rotamer.RotamerAngleTuple_swigregister
650 RotamerAngleTuple_swigregister(RotamerAngleTuple)
651 
652 class RotamerLibrary(IMP.Object):
653  """Proxy of C++ IMP::rotamer::RotamerLibrary class"""
654  thisown = _swig_property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc='The membership flag')
655 
656  def __init__(self, angle_step=10):
657  """
658  __init__(IMP::rotamer::RotamerLibrary self, unsigned int angle_step=10) -> RotamerLibrary
659  __init__(IMP::rotamer::RotamerLibrary self) -> RotamerLibrary
660  """
661  this = _IMP_rotamer.new_RotamerLibrary(angle_step)
662  try:
663  self.this.append(this)
664  except:
665  self.this = this
666 
667  def get_rotamers(self, residue, phi, psi, probability_thr):
668  """get_rotamers(RotamerLibrary self, ResidueType residue, float phi, float psi, float probability_thr) -> IMP::rotamer::RotamerAngleTuples"""
669  return _IMP_rotamer.RotamerLibrary_get_rotamers(self, residue, phi, psi, probability_thr)
670 
671 
672  def read_library_file(self, lib_file_name):
673  """read_library_file(RotamerLibrary self, std::string const & lib_file_name)"""
674  return _IMP_rotamer.RotamerLibrary_read_library_file(self, lib_file_name)
675 
676 
677  def get_version_info(self):
678  """get_version_info(RotamerLibrary self) -> VersionInfo"""
679  return _IMP_rotamer.RotamerLibrary_get_version_info(self)
680 
681 
682  def __str__(self):
683  """__str__(RotamerLibrary self) -> std::string"""
684  return _IMP_rotamer.RotamerLibrary___str__(self)
685 
686 
687  def __repr__(self):
688  """__repr__(RotamerLibrary self) -> std::string"""
689  return _IMP_rotamer.RotamerLibrary___repr__(self)
690 
691 
692  @staticmethod
693  def get_from(o):
694  return _object_cast_to_RotamerLibrary(o)
695 
696 RotamerLibrary_swigregister = _IMP_rotamer.RotamerLibrary_swigregister
697 RotamerLibrary_swigregister(RotamerLibrary)
698 
699 class ResidueRotamer(object):
700  """Proxy of C++ IMP::rotamer::ResidueRotamer class"""
701  thisown = _swig_property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc='The membership flag')
702 
703  def __init__(self, *args):
704  """
705  __init__(IMP::rotamer::ResidueRotamer self, ResidueType rt) -> ResidueRotamer
706  __init__(IMP::rotamer::ResidueRotamer self) -> ResidueRotamer
707  """
708  this = _IMP_rotamer.new_ResidueRotamer(*args)
709  try:
710  self.this.append(this)
711  except:
712  self.this = this
713 
714  def get_coordinates(self, index, at):
715  """get_coordinates(ResidueRotamer self, unsigned int index, AtomType at) -> Vector3D"""
716  return _IMP_rotamer.ResidueRotamer_get_coordinates(self, index, at)
717 
718 
719  def get_number_of_cases(self, at):
720  """get_number_of_cases(ResidueRotamer self, AtomType at) -> unsigned int"""
721  return _IMP_rotamer.ResidueRotamer_get_number_of_cases(self, at)
722 
723 
724  def get_atom_exists(self, at):
725  """get_atom_exists(ResidueRotamer self, AtomType at) -> bool"""
726  return _IMP_rotamer.ResidueRotamer_get_atom_exists(self, at)
727 
728 
729  def get_size(self):
730  """get_size(ResidueRotamer self) -> unsigned int"""
731  return _IMP_rotamer.ResidueRotamer_get_size(self)
732 
733 
734  def get_probability(self, index):
735  """get_probability(ResidueRotamer self, unsigned int index) -> double"""
736  return _IMP_rotamer.ResidueRotamer_get_probability(self, index)
737 
738 
739  def show(self, *args):
740  """
741  show(ResidueRotamer self, _ostream out)
742  show(ResidueRotamer self)
743  """
744  return _IMP_rotamer.ResidueRotamer_show(self, *args)
745 
746 
747  def __str__(self):
748  """__str__(ResidueRotamer self) -> std::string"""
749  return _IMP_rotamer.ResidueRotamer___str__(self)
750 
751 
752  def __repr__(self):
753  """__repr__(ResidueRotamer self) -> std::string"""
754  return _IMP_rotamer.ResidueRotamer___repr__(self)
755 
756  __swig_destroy__ = _IMP_rotamer.delete_ResidueRotamer
757  __del__ = lambda self: None
758 ResidueRotamer_swigregister = _IMP_rotamer.ResidueRotamer_swigregister
759 ResidueRotamer_swigregister(ResidueRotamer)
760 
761 class RotamerCalculator(IMP.Object):
762  """Proxy of C++ IMP::rotamer::RotamerCalculator class"""
763  thisown = _swig_property(lambda x: x.this.own(), lambda x, v: x.this.own(v), doc='The membership flag')
764 
765  def __init__(self, rl):
766  """__init__(IMP::rotamer::RotamerCalculator self, RotamerLibrary rl) -> RotamerCalculator"""
767  this = _IMP_rotamer.new_RotamerCalculator(rl)
768  try:
769  self.this.append(this)
770  except:
771  self.this = this
772 
773  def get_rotamer(self, rd, thr):
774  """get_rotamer(RotamerCalculator self, Residue rd, double thr) -> ResidueRotamer"""
775  return _IMP_rotamer.RotamerCalculator_get_rotamer(self, rd, thr)
776 
777 
778  def get_version_info(self):
779  """get_version_info(RotamerCalculator self) -> VersionInfo"""
780  return _IMP_rotamer.RotamerCalculator_get_version_info(self)
781 
782 
783  def transform(self, protein, score, thr, K, num_iter):
784  """transform(RotamerCalculator self, Hierarchy protein, PairScore score, double thr, double K, int num_iter)"""
785  return _IMP_rotamer.RotamerCalculator_transform(self, protein, score, thr, K, num_iter)
786 
787 
788  def __str__(self):
789  """__str__(RotamerCalculator self) -> std::string"""
790  return _IMP_rotamer.RotamerCalculator___str__(self)
791 
792 
793  def __repr__(self):
794  """__repr__(RotamerCalculator self) -> std::string"""
795  return _IMP_rotamer.RotamerCalculator___repr__(self)
796 
797 
798  @staticmethod
799  def get_from(o):
800  return _object_cast_to_RotamerCalculator(o)
801 
802 RotamerCalculator_swigregister = _IMP_rotamer.RotamerCalculator_swigregister
803 RotamerCalculator_swigregister(RotamerCalculator)
804 
805 
806 def get_module_version():
807  """get_module_version() -> std::string const"""
808  return _IMP_rotamer.get_module_version()
809 
810 def get_example_path(fname):
811  """get_example_path(std::string fname) -> std::string"""
812  return _IMP_rotamer.get_example_path(fname)
813 
814 def get_data_path(fname):
815  """get_data_path(std::string fname) -> std::string"""
816  return _IMP_rotamer.get_data_path(fname)
817 
818 from . import _version_check
819 _version_check.check_version(get_module_version())
820 __version__ = get_module_version()
821 
822 
823 
Various classes to hold sets of particles.
Make CGAL functionality available to IMP.
std::string get_data_path(std::string file_name)
Return the full path to one of this module's data files.
std::string get_example_path(std::string file_name)
Return the full path to one of this module's example files.
Composable functors to implement scores via compile-time composition.
void transform(Hierarchy h, const algebra::Transformation3D &tr)
Transform a hierarchy. This is aware of rigid bodies.
Common base class for heavy weight IMP objects.
Definition: Object.h:106
std::ostream & show(Hierarchy h, std::ostream &out=std::cout)
Print the hierarchy using a given decorator to display each node.
Basic functionality that is expected to be used by a wide variety of IMP users.
General purpose algebraic and geometric methods that are expected to be used by a wide variety of IMP...
Output IMP model data in various file formats.
Functionality for loading, creating, manipulating and scoring atomic structures.