IMP  2.3.0
The Integrative Modeling Platform
example/__init__.py
1 # This file was automatically generated by SWIG (http://www.swig.org).
2 # Version 3.0.2
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_example', [dirname(__file__)])
19  except ImportError:
20  import _IMP_example
21  return _IMP_example
22  if fp is not None:
23  try:
24  _mod = imp.load_module('_IMP_example', fp, pathname, description)
25  finally:
26  fp.close()
27  return _mod
28  _IMP_example = swig_import_helper()
29  del swig_import_helper
30 else:
31  import _IMP_example
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_EXAMPLE_SwigPyIterator(_object):
80  """Proxy of C++ swig::IMP_EXAMPLE_SwigPyIterator class"""
81  __swig_setmethods__ = {}
82  __setattr__ = lambda self, name, value: _swig_setattr(self, IMP_EXAMPLE_SwigPyIterator, name, value)
83  __swig_getmethods__ = {}
84  __getattr__ = lambda self, name: _swig_getattr(self, IMP_EXAMPLE_SwigPyIterator, name)
85  def __init__(self, *args, **kwargs): raise AttributeError("No constructor defined - class is abstract")
86  __repr__ = _swig_repr
87  __swig_destroy__ = _IMP_example.delete_IMP_EXAMPLE_SwigPyIterator
88  __del__ = lambda self : None;
89  def value(self):
90  """value(IMP_EXAMPLE_SwigPyIterator self) -> PyObject *"""
91  return _IMP_example.IMP_EXAMPLE_SwigPyIterator_value(self)
92 
93  def incr(self, n=1):
94  """
95  incr(IMP_EXAMPLE_SwigPyIterator self, size_t n=1) -> IMP_EXAMPLE_SwigPyIterator
96  incr(IMP_EXAMPLE_SwigPyIterator self) -> IMP_EXAMPLE_SwigPyIterator
97  """
98  return _IMP_example.IMP_EXAMPLE_SwigPyIterator_incr(self, n)
99 
100  def decr(self, n=1):
101  """
102  decr(IMP_EXAMPLE_SwigPyIterator self, size_t n=1) -> IMP_EXAMPLE_SwigPyIterator
103  decr(IMP_EXAMPLE_SwigPyIterator self) -> IMP_EXAMPLE_SwigPyIterator
104  """
105  return _IMP_example.IMP_EXAMPLE_SwigPyIterator_decr(self, n)
106 
107  def distance(self, *args):
108  """distance(IMP_EXAMPLE_SwigPyIterator self, IMP_EXAMPLE_SwigPyIterator x) -> ptrdiff_t"""
109  return _IMP_example.IMP_EXAMPLE_SwigPyIterator_distance(self, *args)
110 
111  def equal(self, *args):
112  """equal(IMP_EXAMPLE_SwigPyIterator self, IMP_EXAMPLE_SwigPyIterator x) -> bool"""
113  return _IMP_example.IMP_EXAMPLE_SwigPyIterator_equal(self, *args)
114 
115  def copy(self):
116  """copy(IMP_EXAMPLE_SwigPyIterator self) -> IMP_EXAMPLE_SwigPyIterator"""
117  return _IMP_example.IMP_EXAMPLE_SwigPyIterator_copy(self)
118 
119  def next(self):
120  """next(IMP_EXAMPLE_SwigPyIterator self) -> PyObject *"""
121  return _IMP_example.IMP_EXAMPLE_SwigPyIterator_next(self)
122 
123  def __next__(self):
124  """__next__(IMP_EXAMPLE_SwigPyIterator self) -> PyObject *"""
125  return _IMP_example.IMP_EXAMPLE_SwigPyIterator___next__(self)
126 
127  def previous(self):
128  """previous(IMP_EXAMPLE_SwigPyIterator self) -> PyObject *"""
129  return _IMP_example.IMP_EXAMPLE_SwigPyIterator_previous(self)
130 
131  def advance(self, *args):
132  """advance(IMP_EXAMPLE_SwigPyIterator self, ptrdiff_t n) -> IMP_EXAMPLE_SwigPyIterator"""
133  return _IMP_example.IMP_EXAMPLE_SwigPyIterator_advance(self, *args)
134 
135  def __eq__(self, *args):
136  """__eq__(IMP_EXAMPLE_SwigPyIterator self, IMP_EXAMPLE_SwigPyIterator x) -> bool"""
137  return _IMP_example.IMP_EXAMPLE_SwigPyIterator___eq__(self, *args)
138 
139  def __ne__(self, *args):
140  """__ne__(IMP_EXAMPLE_SwigPyIterator self, IMP_EXAMPLE_SwigPyIterator x) -> bool"""
141  return _IMP_example.IMP_EXAMPLE_SwigPyIterator___ne__(self, *args)
142 
143  def __iadd__(self, *args):
144  """__iadd__(IMP_EXAMPLE_SwigPyIterator self, ptrdiff_t n) -> IMP_EXAMPLE_SwigPyIterator"""
145  return _IMP_example.IMP_EXAMPLE_SwigPyIterator___iadd__(self, *args)
146 
147  def __isub__(self, *args):
148  """__isub__(IMP_EXAMPLE_SwigPyIterator self, ptrdiff_t n) -> IMP_EXAMPLE_SwigPyIterator"""
149  return _IMP_example.IMP_EXAMPLE_SwigPyIterator___isub__(self, *args)
150 
151  def __add__(self, *args):
152  """__add__(IMP_EXAMPLE_SwigPyIterator self, ptrdiff_t n) -> IMP_EXAMPLE_SwigPyIterator"""
153  return _IMP_example.IMP_EXAMPLE_SwigPyIterator___add__(self, *args)
154 
155  def __sub__(self, *args):
156  """
157  __sub__(IMP_EXAMPLE_SwigPyIterator self, ptrdiff_t n) -> IMP_EXAMPLE_SwigPyIterator
158  __sub__(IMP_EXAMPLE_SwigPyIterator self, IMP_EXAMPLE_SwigPyIterator x) -> ptrdiff_t
159  """
160  return _IMP_example.IMP_EXAMPLE_SwigPyIterator___sub__(self, *args)
161 
162  def __iter__(self): return self
163 IMP_EXAMPLE_SwigPyIterator_swigregister = _IMP_example.IMP_EXAMPLE_SwigPyIterator_swigregister
164 IMP_EXAMPLE_SwigPyIterator_swigregister(IMP_EXAMPLE_SwigPyIterator)
165 
166 _value_types=[]
167 _object_types=[]
168 _raii_types=[]
169 _plural_types=[]
170 
171 IMP_DEBUG = _IMP_example.IMP_DEBUG
172 IMP_RELEASE = _IMP_example.IMP_RELEASE
173 IMP_SILENT = _IMP_example.IMP_SILENT
174 IMP_PROGRESS = _IMP_example.IMP_PROGRESS
175 IMP_TERSE = _IMP_example.IMP_TERSE
176 IMP_VERBOSE = _IMP_example.IMP_VERBOSE
177 IMP_MEMORY = _IMP_example.IMP_MEMORY
178 IMP_NONE = _IMP_example.IMP_NONE
179 IMP_USAGE = _IMP_example.IMP_USAGE
180 IMP_INTERNAL = _IMP_example.IMP_INTERNAL
181 IMP_BASE_HAS_LOG4CXX = _IMP_example.IMP_BASE_HAS_LOG4CXX
182 IMP_COMPILER_HAS_AUTO = _IMP_example.IMP_COMPILER_HAS_AUTO
183 IMP_COMPILER_HAS_DEBUG_VECTOR = _IMP_example.IMP_COMPILER_HAS_DEBUG_VECTOR
184 IMP_BASE_HAS_BOOST_RANDOM = _IMP_example.IMP_BASE_HAS_BOOST_RANDOM
185 IMP_BASE_HAS_GPERFTOOLS = _IMP_example.IMP_BASE_HAS_GPERFTOOLS
186 IMP_BASE_HAS_TCMALLOC_HEAPCHECKER = _IMP_example.IMP_BASE_HAS_TCMALLOC_HEAPCHECKER
187 IMP_BASE_HAS_TCMALLOC_HEAPPROFILER = _IMP_example.IMP_BASE_HAS_TCMALLOC_HEAPPROFILER
188 IMPBASE_SHOW_WARNINGS = _IMP_example.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_example.DEFAULT_CHECK
216 NONE = _IMP_example.NONE
217 USAGE = _IMP_example.USAGE
218 USAGE_AND_INTERNAL = _IMP_example.USAGE_AND_INTERNAL
219 
220 def set_check_level(*args):
221  """set_check_level(IMP::base::CheckLevel tf)"""
222  return _IMP_example.set_check_level(*args)
223 
224 def get_check_level():
225  """get_check_level() -> IMP::base::CheckLevel"""
226  return _IMP_example.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_example._ostream_write(self, *args)
238 
239 _ostream_swigregister = _IMP_example._ostream_swigregister
240 _ostream_swigregister(_ostream)
241 
242 IMP_COMPILER_HAS_OVERRIDE = _IMP_example.IMP_COMPILER_HAS_OVERRIDE
243 IMP_COMPILER_HAS_FINAL = _IMP_example.IMP_COMPILER_HAS_FINAL
244 IMP_HAS_NOEXCEPT = _IMP_example.IMP_HAS_NOEXCEPT
245 import IMP.base
246 IMP_CGAL_HAS_BOOST_FILESYSTEM = _IMP_example.IMP_CGAL_HAS_BOOST_FILESYSTEM
247 IMP_CGAL_HAS_BOOST_PROGRAMOPTIONS = _IMP_example.IMP_CGAL_HAS_BOOST_PROGRAMOPTIONS
248 IMP_CGAL_HAS_BOOST_RANDOM = _IMP_example.IMP_CGAL_HAS_BOOST_RANDOM
249 IMP_CGAL_HAS_BOOST_SYSTEM = _IMP_example.IMP_CGAL_HAS_BOOST_SYSTEM
250 IMPCGAL_SHOW_WARNINGS = _IMP_example.IMPCGAL_SHOW_WARNINGS
251 import IMP.cgal
252 IMP_ALGEBRA_HAS_IMP_CGAL = _IMP_example.IMP_ALGEBRA_HAS_IMP_CGAL
253 IMP_ALGEBRA_HAS_BOOST_FILESYSTEM = _IMP_example.IMP_ALGEBRA_HAS_BOOST_FILESYSTEM
254 IMP_ALGEBRA_HAS_BOOST_PROGRAMOPTIONS = _IMP_example.IMP_ALGEBRA_HAS_BOOST_PROGRAMOPTIONS
255 IMP_ALGEBRA_HAS_BOOST_RANDOM = _IMP_example.IMP_ALGEBRA_HAS_BOOST_RANDOM
256 IMP_ALGEBRA_HAS_BOOST_SYSTEM = _IMP_example.IMP_ALGEBRA_HAS_BOOST_SYSTEM
257 IMP_ALGEBRA_HAS_CGAL = _IMP_example.IMP_ALGEBRA_HAS_CGAL
258 IMP_ALGEBRA_HAS_ANN = _IMP_example.IMP_ALGEBRA_HAS_ANN
259 IMPALGEBRA_SHOW_WARNINGS = _IMP_example.IMPALGEBRA_SHOW_WARNINGS
260 import IMP.algebra
261 IMP_KERNEL_HAS_IMP_CGAL = _IMP_example.IMP_KERNEL_HAS_IMP_CGAL
262 IMP_KERNEL_HAS_BOOST_PROGRAMOPTIONS = _IMP_example.IMP_KERNEL_HAS_BOOST_PROGRAMOPTIONS
263 IMP_KERNEL_HAS_BOOST_RANDOM = _IMP_example.IMP_KERNEL_HAS_BOOST_RANDOM
264 IMP_KERNEL_HAS_BOOST_SYSTEM = _IMP_example.IMP_KERNEL_HAS_BOOST_SYSTEM
265 IMP_KERNEL_HAS_CGAL = _IMP_example.IMP_KERNEL_HAS_CGAL
266 IMPKERNEL_SHOW_WARNINGS = _IMP_example.IMPKERNEL_SHOW_WARNINGS
267 import IMP.kernel
268 IMP_DISPLAY_HAS_IMP_BASE = _IMP_example.IMP_DISPLAY_HAS_IMP_BASE
269 IMP_DISPLAY_HAS_IMP_CGAL = _IMP_example.IMP_DISPLAY_HAS_IMP_CGAL
270 IMP_DISPLAY_HAS_BOOST_FILESYSTEM = _IMP_example.IMP_DISPLAY_HAS_BOOST_FILESYSTEM
271 IMP_DISPLAY_HAS_BOOST_PROGRAMOPTIONS = _IMP_example.IMP_DISPLAY_HAS_BOOST_PROGRAMOPTIONS
272 IMP_DISPLAY_HAS_BOOST_RANDOM = _IMP_example.IMP_DISPLAY_HAS_BOOST_RANDOM
273 IMP_DISPLAY_HAS_BOOST_SYSTEM = _IMP_example.IMP_DISPLAY_HAS_BOOST_SYSTEM
274 IMP_DISPLAY_HAS_CGAL = _IMP_example.IMP_DISPLAY_HAS_CGAL
275 IMPDISPLAY_SHOW_WARNINGS = _IMP_example.IMPDISPLAY_SHOW_WARNINGS
276 import IMP.display
277 IMP_SCORE_FUNCTOR_HAS_IMP_CGAL = _IMP_example.IMP_SCORE_FUNCTOR_HAS_IMP_CGAL
278 IMP_SCORE_FUNCTOR_HAS_BOOST_FILESYSTEM = _IMP_example.IMP_SCORE_FUNCTOR_HAS_BOOST_FILESYSTEM
279 IMP_SCORE_FUNCTOR_HAS_BOOST_PROGRAMOPTIONS = _IMP_example.IMP_SCORE_FUNCTOR_HAS_BOOST_PROGRAMOPTIONS
280 IMP_SCORE_FUNCTOR_HAS_BOOST_RANDOM = _IMP_example.IMP_SCORE_FUNCTOR_HAS_BOOST_RANDOM
281 IMP_SCORE_FUNCTOR_HAS_BOOST_SYSTEM = _IMP_example.IMP_SCORE_FUNCTOR_HAS_BOOST_SYSTEM
282 IMP_SCORE_FUNCTOR_HAS_CGAL = _IMP_example.IMP_SCORE_FUNCTOR_HAS_CGAL
283 IMP_SCORE_FUNCTOR_HAS_HDF5 = _IMP_example.IMP_SCORE_FUNCTOR_HAS_HDF5
284 IMPSCOREFUNCTOR_SHOW_WARNINGS = _IMP_example.IMPSCOREFUNCTOR_SHOW_WARNINGS
285 import IMP.score_functor
286 IMP_STATISTICS_HAS_IMP_BASE = _IMP_example.IMP_STATISTICS_HAS_IMP_BASE
287 IMP_STATISTICS_HAS_IMP_CGAL = _IMP_example.IMP_STATISTICS_HAS_IMP_CGAL
288 IMP_STATISTICS_HAS_BOOST_FILESYSTEM = _IMP_example.IMP_STATISTICS_HAS_BOOST_FILESYSTEM
289 IMP_STATISTICS_HAS_BOOST_PROGRAMOPTIONS = _IMP_example.IMP_STATISTICS_HAS_BOOST_PROGRAMOPTIONS
290 IMP_STATISTICS_HAS_BOOST_RANDOM = _IMP_example.IMP_STATISTICS_HAS_BOOST_RANDOM
291 IMP_STATISTICS_HAS_BOOST_SYSTEM = _IMP_example.IMP_STATISTICS_HAS_BOOST_SYSTEM
292 IMP_STATISTICS_HAS_CGAL = _IMP_example.IMP_STATISTICS_HAS_CGAL
293 IMPSTATISTICS_SHOW_WARNINGS = _IMP_example.IMPSTATISTICS_SHOW_WARNINGS
294 import IMP.statistics
295 IMP_CORE_HAS_IMP_BASE = _IMP_example.IMP_CORE_HAS_IMP_BASE
296 IMP_CORE_HAS_IMP_CGAL = _IMP_example.IMP_CORE_HAS_IMP_CGAL
297 IMP_CORE_HAS_IMP_KERNEL = _IMP_example.IMP_CORE_HAS_IMP_KERNEL
298 IMP_CORE_HAS_BOOST_FILESYSTEM = _IMP_example.IMP_CORE_HAS_BOOST_FILESYSTEM
299 IMP_CORE_HAS_BOOST_PROGRAMOPTIONS = _IMP_example.IMP_CORE_HAS_BOOST_PROGRAMOPTIONS
300 IMP_CORE_HAS_BOOST_RANDOM = _IMP_example.IMP_CORE_HAS_BOOST_RANDOM
301 IMP_CORE_HAS_BOOST_SYSTEM = _IMP_example.IMP_CORE_HAS_BOOST_SYSTEM
302 IMP_CORE_HAS_CGAL = _IMP_example.IMP_CORE_HAS_CGAL
303 IMP_CORE_HAS_HDF5 = _IMP_example.IMP_CORE_HAS_HDF5
304 IMPCORE_SHOW_WARNINGS = _IMP_example.IMPCORE_SHOW_WARNINGS
305 import IMP.core
306 IMP_CONTAINER_HAS_IMP_ALGEBRA = _IMP_example.IMP_CONTAINER_HAS_IMP_ALGEBRA
307 IMP_CONTAINER_HAS_IMP_BASE = _IMP_example.IMP_CONTAINER_HAS_IMP_BASE
308 IMP_CONTAINER_HAS_IMP_CGAL = _IMP_example.IMP_CONTAINER_HAS_IMP_CGAL
309 IMP_CONTAINER_HAS_IMP_DISPLAY = _IMP_example.IMP_CONTAINER_HAS_IMP_DISPLAY
310 IMP_CONTAINER_HAS_IMP_KERNEL = _IMP_example.IMP_CONTAINER_HAS_IMP_KERNEL
311 IMP_CONTAINER_HAS_IMP_SCORE_FUNCTOR = _IMP_example.IMP_CONTAINER_HAS_IMP_SCORE_FUNCTOR
312 IMP_CONTAINER_HAS_BOOST_FILESYSTEM = _IMP_example.IMP_CONTAINER_HAS_BOOST_FILESYSTEM
313 IMP_CONTAINER_HAS_BOOST_PROGRAMOPTIONS = _IMP_example.IMP_CONTAINER_HAS_BOOST_PROGRAMOPTIONS
314 IMP_CONTAINER_HAS_BOOST_RANDOM = _IMP_example.IMP_CONTAINER_HAS_BOOST_RANDOM
315 IMP_CONTAINER_HAS_BOOST_SYSTEM = _IMP_example.IMP_CONTAINER_HAS_BOOST_SYSTEM
316 IMP_CONTAINER_HAS_CGAL = _IMP_example.IMP_CONTAINER_HAS_CGAL
317 IMP_CONTAINER_HAS_HDF5 = _IMP_example.IMP_CONTAINER_HAS_HDF5
318 IMPCONTAINER_SHOW_WARNINGS = _IMP_example.IMPCONTAINER_SHOW_WARNINGS
319 import IMP.container
320 IMP_ATOM_HAS_IMP_BASE = _IMP_example.IMP_ATOM_HAS_IMP_BASE
321 IMP_ATOM_HAS_IMP_CGAL = _IMP_example.IMP_ATOM_HAS_IMP_CGAL
322 IMP_ATOM_HAS_IMP_KERNEL = _IMP_example.IMP_ATOM_HAS_IMP_KERNEL
323 IMP_ATOM_HAS_IMP_SCORE_FUNCTOR = _IMP_example.IMP_ATOM_HAS_IMP_SCORE_FUNCTOR
324 IMP_ATOM_HAS_BOOST_PROGRAMOPTIONS = _IMP_example.IMP_ATOM_HAS_BOOST_PROGRAMOPTIONS
325 IMP_ATOM_HAS_BOOST_RANDOM = _IMP_example.IMP_ATOM_HAS_BOOST_RANDOM
326 IMP_ATOM_HAS_BOOST_REGEX = _IMP_example.IMP_ATOM_HAS_BOOST_REGEX
327 IMP_ATOM_HAS_BOOST_SYSTEM = _IMP_example.IMP_ATOM_HAS_BOOST_SYSTEM
328 IMP_ATOM_HAS_CGAL = _IMP_example.IMP_ATOM_HAS_CGAL
329 IMP_ATOM_HAS_HDF5 = _IMP_example.IMP_ATOM_HAS_HDF5
330 IMPATOM_SHOW_WARNINGS = _IMP_example.IMPATOM_SHOW_WARNINGS
331 IMP_ATOM_TYPE_INDEX = _IMP_example.IMP_ATOM_TYPE_INDEX
332 IMP_RESIDUE_TYPE_INDEX = _IMP_example.IMP_RESIDUE_TYPE_INDEX
333 IMP_HIERARCHY_TYPE_INDEX = _IMP_example.IMP_HIERARCHY_TYPE_INDEX
334 import IMP.atom
335 IMP_RMF_HAS_IMP_BASE = _IMP_example.IMP_RMF_HAS_IMP_BASE
336 IMP_RMF_HAS_IMP_CGAL = _IMP_example.IMP_RMF_HAS_IMP_CGAL
337 IMP_RMF_HAS_IMP_SCORE_FUNCTOR = _IMP_example.IMP_RMF_HAS_IMP_SCORE_FUNCTOR
338 IMP_RMF_HAS_BOOST_FILESYSTEM = _IMP_example.IMP_RMF_HAS_BOOST_FILESYSTEM
339 IMP_RMF_HAS_BOOST_PROGRAMOPTIONS = _IMP_example.IMP_RMF_HAS_BOOST_PROGRAMOPTIONS
340 IMP_RMF_HAS_BOOST_RANDOM = _IMP_example.IMP_RMF_HAS_BOOST_RANDOM
341 IMP_RMF_HAS_BOOST_REGEX = _IMP_example.IMP_RMF_HAS_BOOST_REGEX
342 IMP_RMF_HAS_BOOST_SYSTEM = _IMP_example.IMP_RMF_HAS_BOOST_SYSTEM
343 IMP_RMF_HAS_CGAL = _IMP_example.IMP_RMF_HAS_CGAL
344 IMP_RMF_HAS_HDF5 = _IMP_example.IMP_RMF_HAS_HDF5
345 IMPRMF_SHOW_WARNINGS = _IMP_example.IMPRMF_SHOW_WARNINGS
346 import IMP.rmf
347 import RMF
348 IMP_DOMINO_HAS_IMP_ATOM = _IMP_example.IMP_DOMINO_HAS_IMP_ATOM
349 IMP_DOMINO_HAS_IMP_BASE = _IMP_example.IMP_DOMINO_HAS_IMP_BASE
350 IMP_DOMINO_HAS_IMP_CGAL = _IMP_example.IMP_DOMINO_HAS_IMP_CGAL
351 IMP_DOMINO_HAS_IMP_KERNEL = _IMP_example.IMP_DOMINO_HAS_IMP_KERNEL
352 IMP_DOMINO_HAS_IMP_RMF = _IMP_example.IMP_DOMINO_HAS_IMP_RMF
353 IMP_DOMINO_HAS_IMP_SCORE_FUNCTOR = _IMP_example.IMP_DOMINO_HAS_IMP_SCORE_FUNCTOR
354 IMP_DOMINO_HAS_BOOST_FILESYSTEM = _IMP_example.IMP_DOMINO_HAS_BOOST_FILESYSTEM
355 IMP_DOMINO_HAS_BOOST_PROGRAMOPTIONS = _IMP_example.IMP_DOMINO_HAS_BOOST_PROGRAMOPTIONS
356 IMP_DOMINO_HAS_BOOST_RANDOM = _IMP_example.IMP_DOMINO_HAS_BOOST_RANDOM
357 IMP_DOMINO_HAS_BOOST_REGEX = _IMP_example.IMP_DOMINO_HAS_BOOST_REGEX
358 IMP_DOMINO_HAS_BOOST_SYSTEM = _IMP_example.IMP_DOMINO_HAS_BOOST_SYSTEM
359 IMP_DOMINO_HAS_CGAL = _IMP_example.IMP_DOMINO_HAS_CGAL
360 IMP_DOMINO_HAS_HDF5 = _IMP_example.IMP_DOMINO_HAS_HDF5
361 IMP_DOMINO_HAS_RMF = _IMP_example.IMP_DOMINO_HAS_RMF
362 IMPDOMINO_SHOW_WARNINGS = _IMP_example.IMPDOMINO_SHOW_WARNINGS
363 import RMF_HDF5
364 import IMP.domino
365 IMP_EXAMPLE_HAS_IMP_ALGEBRA = _IMP_example.IMP_EXAMPLE_HAS_IMP_ALGEBRA
366 IMP_EXAMPLE_HAS_IMP_BASE = _IMP_example.IMP_EXAMPLE_HAS_IMP_BASE
367 IMP_EXAMPLE_HAS_IMP_CGAL = _IMP_example.IMP_EXAMPLE_HAS_IMP_CGAL
368 IMP_EXAMPLE_HAS_IMP_DISPLAY = _IMP_example.IMP_EXAMPLE_HAS_IMP_DISPLAY
369 IMP_EXAMPLE_HAS_IMP_KERNEL = _IMP_example.IMP_EXAMPLE_HAS_IMP_KERNEL
370 IMP_EXAMPLE_HAS_IMP_RMF = _IMP_example.IMP_EXAMPLE_HAS_IMP_RMF
371 IMP_EXAMPLE_HAS_IMP_SCORE_FUNCTOR = _IMP_example.IMP_EXAMPLE_HAS_IMP_SCORE_FUNCTOR
372 IMP_EXAMPLE_HAS_IMP_STATISTICS = _IMP_example.IMP_EXAMPLE_HAS_IMP_STATISTICS
373 IMP_EXAMPLE_HAS_BOOST_FILESYSTEM = _IMP_example.IMP_EXAMPLE_HAS_BOOST_FILESYSTEM
374 IMP_EXAMPLE_HAS_BOOST_GRAPH = _IMP_example.IMP_EXAMPLE_HAS_BOOST_GRAPH
375 IMP_EXAMPLE_HAS_BOOST_PROGRAMOPTIONS = _IMP_example.IMP_EXAMPLE_HAS_BOOST_PROGRAMOPTIONS
376 IMP_EXAMPLE_HAS_BOOST_RANDOM = _IMP_example.IMP_EXAMPLE_HAS_BOOST_RANDOM
377 IMP_EXAMPLE_HAS_BOOST_REGEX = _IMP_example.IMP_EXAMPLE_HAS_BOOST_REGEX
378 IMP_EXAMPLE_HAS_BOOST_SYSTEM = _IMP_example.IMP_EXAMPLE_HAS_BOOST_SYSTEM
379 IMP_EXAMPLE_HAS_CGAL = _IMP_example.IMP_EXAMPLE_HAS_CGAL
380 IMP_EXAMPLE_HAS_HDF5 = _IMP_example.IMP_EXAMPLE_HAS_HDF5
381 IMP_EXAMPLE_HAS_RMF = _IMP_example.IMP_EXAMPLE_HAS_RMF
382 IMP_EXAMPLE_HAS_EXAMPLEDEPENDENCY = _IMP_example.IMP_EXAMPLE_HAS_EXAMPLEDEPENDENCY
383 IMPEXAMPLE_SHOW_WARNINGS = _IMP_example.IMPEXAMPLE_SHOW_WARNINGS
384 _object_types.append("ExampleRestraint")
385 
386 
387 def _object_cast_to_ExampleRestraint(*args):
388  """_object_cast_to_ExampleRestraint(Object o) -> ExampleRestraint"""
389  return _IMP_example._object_cast_to_ExampleRestraint(*args)
390 def ExampleDecorators(l=[]):
391  return [ExampleDecorator(x) for x in l]
392 _plural_types.append("ExampleDecorators")
393 
394 _value_types.append("ExampleDecorator")
395 
396 _object_types.append("ExampleUnaryFunction")
397 
398 
399 def _object_cast_to_ExampleUnaryFunction(*args):
400  """_object_cast_to_ExampleUnaryFunction(Object o) -> ExampleUnaryFunction"""
401  return _IMP_example._object_cast_to_ExampleUnaryFunction(*args)
402 _object_types.append("ExampleSingletonModifier")
403 
404 
405 def _object_cast_to_ExampleSingletonModifier(*args):
406  """_object_cast_to_ExampleSingletonModifier(Object o) -> ExampleSingletonModifier"""
407  return _IMP_example._object_cast_to_ExampleSingletonModifier(*args)
408 _object_types.append("ExamplePairScore")
409 
410 
411 def _object_cast_to_ExamplePairScore(*args):
412  """_object_cast_to_ExamplePairScore(Object o) -> ExamplePairScore"""
413  return _IMP_example._object_cast_to_ExamplePairScore(*args)
414 _object_types.append("ExampleSubsetFilterTable")
415 
416 
417 def _object_cast_to_ExampleSubsetFilterTable(*args):
418  """_object_cast_to_ExampleSubsetFilterTable(Object o) -> ExampleSubsetFilterTable"""
419  return _IMP_example._object_cast_to_ExampleSubsetFilterTable(*args)
420 _object_types.append("ExampleConstraint")
421 
422 
423 def _object_cast_to_ExampleConstraint(*args):
424  """_object_cast_to_ExampleConstraint(Object o) -> ExampleConstraint"""
425  return _IMP_example._object_cast_to_ExampleConstraint(*args)
426 _object_types.append("ExampleObject")
427 
428 
429 def _object_cast_to_ExampleObject(*args):
430  """_object_cast_to_ExampleObject(Object o) -> ExampleObject"""
431  return _IMP_example._object_cast_to_ExampleObject(*args)
432 ExampleTemplateClass3Ds=list
433 _plural_types.append("ExampleTemplateClass3Ds")
434 _value_types.append("ExampleTemplateClass3D")
435 
436 def create_model_and_particles():
437  m= IMP.Model()
440  IMP.algebra.Vector3D(10,10,10))
441  for i in range(0,100):
442  p= IMP.Particle(m)
443  sc.add_particle(p)
445  d.set_coordinates_are_optimized(True)
446  return (m, sc)
447 
448 class ExampleRestraint(IMP.kernel.Restraint):
449  """Proxy of C++ IMP::example::ExampleRestraint class"""
450  __swig_setmethods__ = {}
451  for _s in [IMP.kernel.Restraint]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
452  __setattr__ = lambda self, name, value: _swig_setattr(self, ExampleRestraint, name, value)
453  __swig_getmethods__ = {}
454  for _s in [IMP.kernel.Restraint]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
455  __getattr__ = lambda self, name: _swig_getattr(self, ExampleRestraint, name)
456  def __init__(self, *args):
457  """__init__(IMP::example::ExampleRestraint self, Model m, IMP::kernel::ParticleIndex p, double k) -> ExampleRestraint"""
458  this = _IMP_example.new_ExampleRestraint(*args)
459  try: self.this.append(this)
460  except: self.this = this
461  def do_add_score_and_derivatives(self, *args):
462  """do_add_score_and_derivatives(ExampleRestraint self, ScoreAccumulator sa)"""
463  return _IMP_example.ExampleRestraint_do_add_score_and_derivatives(self, *args)
464 
465  def do_get_inputs(self):
466  """do_get_inputs(ExampleRestraint self) -> IMP::kernel::ModelObjectsTemp"""
467  return _IMP_example.ExampleRestraint_do_get_inputs(self)
468 
469  def get_version_info(self):
470  """get_version_info(ExampleRestraint self) -> VersionInfo"""
471  return _IMP_example.ExampleRestraint_get_version_info(self)
472 
473  def __str__(self):
474  """__str__(ExampleRestraint self) -> std::string"""
475  return _IMP_example.ExampleRestraint___str__(self)
476 
477  def __repr__(self):
478  """__repr__(ExampleRestraint self) -> std::string"""
479  return _IMP_example.ExampleRestraint___repr__(self)
480 
481  def get_from(o):
482  return _object_cast_to_ExampleRestraint(o)
483  get_from = staticmethod(get_from)
484 
485 ExampleRestraint_swigregister = _IMP_example.ExampleRestraint_swigregister
486 ExampleRestraint_swigregister(ExampleRestraint)
487 
488 class ExampleDecorator(IMP.kernel.Decorator):
489  """Proxy of C++ IMP::example::ExampleDecorator class"""
490  __swig_setmethods__ = {}
491  for _s in [IMP.kernel.Decorator]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
492  __setattr__ = lambda self, name, value: _swig_setattr(self, ExampleDecorator, name, value)
493  __swig_getmethods__ = {}
494  for _s in [IMP.kernel.Decorator]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
495  __getattr__ = lambda self, name: _swig_getattr(self, ExampleDecorator, name)
496  def get_decorator_name(self):
497  """get_decorator_name(ExampleDecorator self) -> std::string"""
498  return _IMP_example.ExampleDecorator_get_decorator_name(self)
499 
500  def set_decorator_name(self, *args):
501  """set_decorator_name(ExampleDecorator self, std::string nm)"""
502  return _IMP_example.ExampleDecorator_set_decorator_name(self, *args)
503 
504  def __init__(self, *args):
505  """
506  __init__(IMP::example::ExampleDecorator self) -> ExampleDecorator
507  __init__(IMP::example::ExampleDecorator self, Model m, ::IMP::kernel::ParticleIndex id) -> ExampleDecorator
508  __init__(IMP::example::ExampleDecorator self, _ParticleAdaptor d) -> ExampleDecorator
509  """
510  this = _IMP_example.new_ExampleDecorator(*args)
511  try: self.this.append(this)
512  except: self.this = this
513  def get_is_setup(*args):
514  """
515  get_is_setup(Model m, IMP::kernel::ParticleIndex pi) -> bool
516  get_is_setup(_ParticleAdaptor p) -> bool
517  """
518  return _IMP_example.ExampleDecorator_get_is_setup(*args)
519 
520  if _newclass:get_is_setup = staticmethod(get_is_setup)
521  __swig_getmethods__["get_is_setup"] = lambda x: get_is_setup
522  def show(self, *args):
523  """
524  show(ExampleDecorator self, _ostream out=std::cout)
525  show(ExampleDecorator self)
526  """
527  return _IMP_example.ExampleDecorator_show(self, *args)
528 
529  def setup_particle(*args):
530  """
531  setup_particle(Model m, IMP::kernel::ParticleIndex pi, std::string name) -> ExampleDecorator
532  setup_particle(_ParticleAdaptor decorator, std::string name) -> ExampleDecorator
533  """
534  return _IMP_example.ExampleDecorator_setup_particle(*args)
535 
536  if _newclass:setup_particle = staticmethod(setup_particle)
537  __swig_getmethods__["setup_particle"] = lambda x: setup_particle
538  def add_attribute(self, *args):
539  """
540  add_attribute(ExampleDecorator self, FloatKey k, IMP::Float v, bool opt)
541  add_attribute(ExampleDecorator self, FloatKey a0, IMP::Float a1)
542  add_attribute(ExampleDecorator self, IntKey a0, IMP::Int a1)
543  add_attribute(ExampleDecorator self, StringKey a0, IMP::String a1)
544  add_attribute(ExampleDecorator self, ParticleIndexKey a0, Particle a1)
545  add_attribute(ExampleDecorator self, ObjectKey a0, Object a1)
546  """
547  return _IMP_example.ExampleDecorator_add_attribute(self, *args)
548 
549  def get_value(self, *args):
550  """
551  get_value(ExampleDecorator self, FloatKey a0) -> IMP::Float
552  get_value(ExampleDecorator self, IntKey a0) -> IMP::Int
553  get_value(ExampleDecorator self, StringKey a0) -> IMP::String
554  get_value(ExampleDecorator self, ParticleIndexKey a0) -> Particle
555  get_value(ExampleDecorator self, ObjectKey a0) -> Object
556  """
557  return _IMP_example.ExampleDecorator_get_value(self, *args)
558 
559  def set_value(self, *args):
560  """
561  set_value(ExampleDecorator self, FloatKey a0, IMP::Float a1)
562  set_value(ExampleDecorator self, IntKey a0, IMP::Int a1)
563  set_value(ExampleDecorator self, StringKey a0, IMP::String a1)
564  set_value(ExampleDecorator self, ParticleIndexKey a0, Particle a1)
565  set_value(ExampleDecorator self, ObjectKey a0, Object a1)
566  """
567  return _IMP_example.ExampleDecorator_set_value(self, *args)
568 
569  def remove_attribute(self, *args):
570  """
571  remove_attribute(ExampleDecorator self, FloatKey a0)
572  remove_attribute(ExampleDecorator self, IntKey a0)
573  remove_attribute(ExampleDecorator self, StringKey a0)
574  remove_attribute(ExampleDecorator self, ParticleIndexKey a0)
575  remove_attribute(ExampleDecorator self, ObjectKey a0)
576  """
577  return _IMP_example.ExampleDecorator_remove_attribute(self, *args)
578 
579  def has_attribute(self, *args):
580  """
581  has_attribute(ExampleDecorator self, FloatKey a0) -> bool
582  has_attribute(ExampleDecorator self, IntKey a0) -> bool
583  has_attribute(ExampleDecorator self, StringKey a0) -> bool
584  has_attribute(ExampleDecorator self, ParticleIndexKey a0) -> bool
585  has_attribute(ExampleDecorator self, ObjectKey a0) -> bool
586  """
587  return _IMP_example.ExampleDecorator_has_attribute(self, *args)
588 
589  def get_derivative(self, *args):
590  """get_derivative(ExampleDecorator self, FloatKey a0) -> double"""
591  return _IMP_example.ExampleDecorator_get_derivative(self, *args)
592 
593  def get_name(self):
594  """get_name(ExampleDecorator self) -> std::string"""
595  return _IMP_example.ExampleDecorator_get_name(self)
596 
597  def clear_caches(self):
598  """clear_caches(ExampleDecorator self)"""
599  return _IMP_example.ExampleDecorator_clear_caches(self)
600 
601  def set_name(self, *args):
602  """set_name(ExampleDecorator self, std::string a0)"""
603  return _IMP_example.ExampleDecorator_set_name(self, *args)
604 
605  def set_check_level(self, *args):
606  """set_check_level(ExampleDecorator self, IMP::base::CheckLevel a0)"""
607  return _IMP_example.ExampleDecorator_set_check_level(self, *args)
608 
609  def add_to_derivative(self, *args):
610  """add_to_derivative(ExampleDecorator self, FloatKey a0, double a1, DerivativeAccumulator a2)"""
611  return _IMP_example.ExampleDecorator_add_to_derivative(self, *args)
612 
613  def set_is_optimized(self, *args):
614  """set_is_optimized(ExampleDecorator self, FloatKey a0, bool a1)"""
615  return _IMP_example.ExampleDecorator_set_is_optimized(self, *args)
616 
617  def get_is_optimized(self, *args):
618  """get_is_optimized(ExampleDecorator self, FloatKey a0) -> bool"""
619  return _IMP_example.ExampleDecorator_get_is_optimized(self, *args)
620 
621  def get_check_level(self):
622  """get_check_level(ExampleDecorator self) -> IMP::base::CheckLevel"""
623  return _IMP_example.ExampleDecorator_get_check_level(self)
624 
625  def __eq__(self, *args):
626  """
627  __eq__(ExampleDecorator self, ExampleDecorator o) -> bool
628  __eq__(ExampleDecorator self, Particle d) -> bool
629  """
630  return _IMP_example.ExampleDecorator___eq__(self, *args)
631 
632  def __ne__(self, *args):
633  """
634  __ne__(ExampleDecorator self, ExampleDecorator o) -> bool
635  __ne__(ExampleDecorator self, Particle d) -> bool
636  """
637  return _IMP_example.ExampleDecorator___ne__(self, *args)
638 
639  def __le__(self, *args):
640  """
641  __le__(ExampleDecorator self, ExampleDecorator o) -> bool
642  __le__(ExampleDecorator self, Particle d) -> bool
643  """
644  return _IMP_example.ExampleDecorator___le__(self, *args)
645 
646  def __lt__(self, *args):
647  """
648  __lt__(ExampleDecorator self, ExampleDecorator o) -> bool
649  __lt__(ExampleDecorator self, Particle d) -> bool
650  """
651  return _IMP_example.ExampleDecorator___lt__(self, *args)
652 
653  def __ge__(self, *args):
654  """
655  __ge__(ExampleDecorator self, ExampleDecorator o) -> bool
656  __ge__(ExampleDecorator self, Particle d) -> bool
657  """
658  return _IMP_example.ExampleDecorator___ge__(self, *args)
659 
660  def __gt__(self, *args):
661  """
662  __gt__(ExampleDecorator self, ExampleDecorator o) -> bool
663  __gt__(ExampleDecorator self, Particle d) -> bool
664  """
665  return _IMP_example.ExampleDecorator___gt__(self, *args)
666 
667  def __str__(self):
668  """__str__(ExampleDecorator self) -> std::string"""
669  return _IMP_example.ExampleDecorator___str__(self)
670 
671  def __repr__(self):
672  """__repr__(ExampleDecorator self) -> std::string"""
673  return _IMP_example.ExampleDecorator___repr__(self)
674 
675  __swig_destroy__ = _IMP_example.delete_ExampleDecorator
676  __del__ = lambda self : None;
677 ExampleDecorator_swigregister = _IMP_example.ExampleDecorator_swigregister
678 ExampleDecorator_swigregister(ExampleDecorator)
679 
680 def ExampleDecorator_get_is_setup(*args):
681  """
682  get_is_setup(Model m, IMP::kernel::ParticleIndex pi) -> bool
683  ExampleDecorator_get_is_setup(_ParticleAdaptor p) -> bool
684  """
685  return _IMP_example.ExampleDecorator_get_is_setup(*args)
686 
687 def ExampleDecorator_setup_particle(*args):
688  """
689  setup_particle(Model m, IMP::kernel::ParticleIndex pi, std::string name) -> ExampleDecorator
690  ExampleDecorator_setup_particle(_ParticleAdaptor decorator, std::string name) -> ExampleDecorator
691  """
692  return _IMP_example.ExampleDecorator_setup_particle(*args)
693 
694 
695 def __lshift__(*args):
696  """__lshift__(_ostream out, ExampleDecorator n) -> _ostream"""
697  return _IMP_example.__lshift__(*args)
698 class ExampleUnaryFunction(IMP.kernel.UnaryFunction):
699  """Proxy of C++ IMP::example::ExampleUnaryFunction class"""
700  __swig_setmethods__ = {}
701  for _s in [IMP.kernel.UnaryFunction]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
702  __setattr__ = lambda self, name, value: _swig_setattr(self, ExampleUnaryFunction, name, value)
703  __swig_getmethods__ = {}
704  for _s in [IMP.kernel.UnaryFunction]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
705  __getattr__ = lambda self, name: _swig_getattr(self, ExampleUnaryFunction, name)
706  def __init__(self, *args):
707  """__init__(IMP::example::ExampleUnaryFunction self, IMP::Float center, IMP::Float k) -> ExampleUnaryFunction"""
708  this = _IMP_example.new_ExampleUnaryFunction(*args)
709  try: self.this.append(this)
710  except: self.this = this
711  def get_version_info(self):
712  """get_version_info(ExampleUnaryFunction self) -> VersionInfo"""
713  return _IMP_example.ExampleUnaryFunction_get_version_info(self)
714 
715  def __str__(self):
716  """__str__(ExampleUnaryFunction self) -> std::string"""
717  return _IMP_example.ExampleUnaryFunction___str__(self)
718 
719  def __repr__(self):
720  """__repr__(ExampleUnaryFunction self) -> std::string"""
721  return _IMP_example.ExampleUnaryFunction___repr__(self)
722 
723  def get_from(o):
724  return _object_cast_to_ExampleUnaryFunction(o)
725  get_from = staticmethod(get_from)
726 
727 ExampleUnaryFunction_swigregister = _IMP_example.ExampleUnaryFunction_swigregister
728 ExampleUnaryFunction_swigregister(ExampleUnaryFunction)
729 
730 class ExampleObject(IMP.base.Object):
731  """Proxy of C++ IMP::example::ExampleObject class"""
732  __swig_setmethods__ = {}
733  for _s in [IMP.base.Object]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
734  __setattr__ = lambda self, name, value: _swig_setattr(self, ExampleObject, name, value)
735  __swig_getmethods__ = {}
736  for _s in [IMP.base.Object]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
737  __getattr__ = lambda self, name: _swig_getattr(self, ExampleObject, name)
738  def __init__(self, *args):
739  """__init__(IMP::example::ExampleObject self, IMP::Floats const & data) -> ExampleObject"""
740  this = _IMP_example.new_ExampleObject(*args)
741  try: self.this.append(this)
742  except: self.this = this
743  def get_data(self, *args):
744  """get_data(ExampleObject self, unsigned int i) -> double"""
745  return _IMP_example.ExampleObject_get_data(self, *args)
746 
747  def get_version_info(self):
748  """get_version_info(ExampleObject self) -> VersionInfo"""
749  return _IMP_example.ExampleObject_get_version_info(self)
750 
751  def __str__(self):
752  """__str__(ExampleObject self) -> std::string"""
753  return _IMP_example.ExampleObject___str__(self)
754 
755  def __repr__(self):
756  """__repr__(ExampleObject self) -> std::string"""
757  return _IMP_example.ExampleObject___repr__(self)
758 
759  def get_from(o):
760  return _object_cast_to_ExampleObject(o)
761  get_from = staticmethod(get_from)
762 
763 ExampleObject_swigregister = _IMP_example.ExampleObject_swigregister
764 ExampleObject_swigregister(ExampleObject)
765 
766 class ExampleSingletonModifier(IMP.kernel.SingletonModifier):
767  """Proxy of C++ IMP::example::ExampleSingletonModifier class"""
768  __swig_setmethods__ = {}
769  for _s in [IMP.kernel.SingletonModifier]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
770  __setattr__ = lambda self, name, value: _swig_setattr(self, ExampleSingletonModifier, name, value)
771  __swig_getmethods__ = {}
772  for _s in [IMP.kernel.SingletonModifier]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
773  __getattr__ = lambda self, name: _swig_getattr(self, ExampleSingletonModifier, name)
774  def __init__(self, *args):
775  """__init__(IMP::example::ExampleSingletonModifier self, BoundingBox3D bb) -> ExampleSingletonModifier"""
776  this = _IMP_example.new_ExampleSingletonModifier(*args)
777  try: self.this.append(this)
778  except: self.this = this
779  def do_get_inputs(self, *args):
780  """do_get_inputs(ExampleSingletonModifier self, Model m, IMP::kernel::ParticleIndexes const & pis) -> IMP::kernel::ModelObjectsTemp"""
781  return _IMP_example.ExampleSingletonModifier_do_get_inputs(self, *args)
782 
783  def do_get_outputs(self, *args):
784  """do_get_outputs(ExampleSingletonModifier self, Model m, IMP::kernel::ParticleIndexes const & pis) -> IMP::kernel::ModelObjectsTemp"""
785  return _IMP_example.ExampleSingletonModifier_do_get_outputs(self, *args)
786 
787  def get_version_info(self):
788  """get_version_info(ExampleSingletonModifier self) -> VersionInfo"""
789  return _IMP_example.ExampleSingletonModifier_get_version_info(self)
790 
791  def __str__(self):
792  """__str__(ExampleSingletonModifier self) -> std::string"""
793  return _IMP_example.ExampleSingletonModifier___str__(self)
794 
795  def __repr__(self):
796  """__repr__(ExampleSingletonModifier self) -> std::string"""
797  return _IMP_example.ExampleSingletonModifier___repr__(self)
798 
799  def get_from(o):
800  return _object_cast_to_ExampleSingletonModifier(o)
801  get_from = staticmethod(get_from)
802 
803 ExampleSingletonModifier_swigregister = _IMP_example.ExampleSingletonModifier_swigregister
804 ExampleSingletonModifier_swigregister(ExampleSingletonModifier)
805 
806 class ExamplePairScore(IMP.kernel.PairScore):
807  """Proxy of C++ IMP::example::ExamplePairScore class"""
808  __swig_setmethods__ = {}
809  for _s in [IMP.kernel.PairScore]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
810  __setattr__ = lambda self, name, value: _swig_setattr(self, ExamplePairScore, name, value)
811  __swig_getmethods__ = {}
812  for _s in [IMP.kernel.PairScore]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
813  __getattr__ = lambda self, name: _swig_getattr(self, ExamplePairScore, name)
814  def __init__(self, *args):
815  """__init__(IMP::example::ExamplePairScore self, double x0, double k) -> ExamplePairScore"""
816  this = _IMP_example.new_ExamplePairScore(*args)
817  try: self.this.append(this)
818  except: self.this = this
819  def do_get_inputs(self, *args):
820  """do_get_inputs(ExamplePairScore self, Model m, IMP::kernel::ParticleIndexes const & pis) -> IMP::kernel::ModelObjectsTemp"""
821  return _IMP_example.ExamplePairScore_do_get_inputs(self, *args)
822 
823  def get_version_info(self):
824  """get_version_info(ExamplePairScore self) -> VersionInfo"""
825  return _IMP_example.ExamplePairScore_get_version_info(self)
826 
827  def __str__(self):
828  """__str__(ExamplePairScore self) -> std::string"""
829  return _IMP_example.ExamplePairScore___str__(self)
830 
831  def __repr__(self):
832  """__repr__(ExamplePairScore self) -> std::string"""
833  return _IMP_example.ExamplePairScore___repr__(self)
834 
835  def get_from(o):
836  return _object_cast_to_ExamplePairScore(o)
837  get_from = staticmethod(get_from)
838 
839 ExamplePairScore_swigregister = _IMP_example.ExamplePairScore_swigregister
840 ExamplePairScore_swigregister(ExamplePairScore)
841 
842 class ExampleSubsetFilterTable(IMP.domino.SubsetFilterTable):
843  """Proxy of C++ IMP::example::ExampleSubsetFilterTable class"""
844  __swig_setmethods__ = {}
845  for _s in [IMP.domino.SubsetFilterTable]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
846  __setattr__ = lambda self, name, value: _swig_setattr(self, ExampleSubsetFilterTable, name, value)
847  __swig_getmethods__ = {}
848  for _s in [IMP.domino.SubsetFilterTable]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
849  __getattr__ = lambda self, name: _swig_getattr(self, ExampleSubsetFilterTable, name)
850  def __init__(self, *args):
851  """__init__(IMP::example::ExampleSubsetFilterTable self, unsigned int max_diff, IMP::kernel::ParticlesTemp const & pt) -> ExampleSubsetFilterTable"""
852  this = _IMP_example.new_ExampleSubsetFilterTable(*args)
853  try: self.this.append(this)
854  except: self.this = this
855  def get_version_info(self):
856  """get_version_info(ExampleSubsetFilterTable self) -> VersionInfo"""
857  return _IMP_example.ExampleSubsetFilterTable_get_version_info(self)
858 
859  def __str__(self):
860  """__str__(ExampleSubsetFilterTable self) -> std::string"""
861  return _IMP_example.ExampleSubsetFilterTable___str__(self)
862 
863  def __repr__(self):
864  """__repr__(ExampleSubsetFilterTable self) -> std::string"""
865  return _IMP_example.ExampleSubsetFilterTable___repr__(self)
866 
867  def get_from(o):
868  return _object_cast_to_ExampleSubsetFilterTable(o)
869  get_from = staticmethod(get_from)
870 
871 ExampleSubsetFilterTable_swigregister = _IMP_example.ExampleSubsetFilterTable_swigregister
872 ExampleSubsetFilterTable_swigregister(ExampleSubsetFilterTable)
873 
874 class ExampleConstraint(IMP.kernel.Constraint):
875  """Proxy of C++ IMP::example::ExampleConstraint class"""
876  __swig_setmethods__ = {}
877  for _s in [IMP.kernel.Constraint]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
878  __setattr__ = lambda self, name, value: _swig_setattr(self, ExampleConstraint, name, value)
879  __swig_getmethods__ = {}
880  for _s in [IMP.kernel.Constraint]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
881  __getattr__ = lambda self, name: _swig_getattr(self, ExampleConstraint, name)
882  def __init__(self, *args):
883  """__init__(IMP::example::ExampleConstraint self, Particle p) -> ExampleConstraint"""
884  this = _IMP_example.new_ExampleConstraint(*args)
885  try: self.this.append(this)
886  except: self.this = this
887  def do_get_inputs(self):
888  """do_get_inputs(ExampleConstraint self) -> IMP::kernel::ModelObjectsTemp"""
889  return _IMP_example.ExampleConstraint_do_get_inputs(self)
890 
891  def do_get_outputs(self):
892  """do_get_outputs(ExampleConstraint self) -> IMP::kernel::ModelObjectsTemp"""
893  return _IMP_example.ExampleConstraint_do_get_outputs(self)
894 
895  def get_version_info(self):
896  """get_version_info(ExampleConstraint self) -> VersionInfo"""
897  return _IMP_example.ExampleConstraint_get_version_info(self)
898 
899  def __str__(self):
900  """__str__(ExampleConstraint self) -> std::string"""
901  return _IMP_example.ExampleConstraint___str__(self)
902 
903  def __repr__(self):
904  """__repr__(ExampleConstraint self) -> std::string"""
905  return _IMP_example.ExampleConstraint___repr__(self)
906 
907  def get_from(o):
908  return _object_cast_to_ExampleConstraint(o)
909  get_from = staticmethod(get_from)
910 
911 ExampleConstraint_swigregister = _IMP_example.ExampleConstraint_swigregister
912 ExampleConstraint_swigregister(ExampleConstraint)
913 
914 
915 def create_serial_mover(*args):
916  """create_serial_mover(IMP::kernel::ParticlesTemp const & ps) -> MonteCarloMover"""
917  return _IMP_example.create_serial_mover(*args)
918 
919 def optimize_balls(*args):
920  """
921  optimize_balls(IMP::kernel::ParticlesTemp const & ps, IMP::kernel::RestraintsTemp const & rs=IMP::kernel::RestraintsTemp(),
922  IMP::kernel::PairPredicates const & excluded=IMP::kernel::PairPredicates(),
923  IMP::kernel::OptimizerStates const & opt_states=IMP::kernel::OptimizerStates(),
924  IMP::base::LogLevel ll=DEFAULT)
925  optimize_balls(IMP::kernel::ParticlesTemp const & ps, IMP::kernel::RestraintsTemp const & rs=IMP::kernel::RestraintsTemp(),
926  IMP::kernel::PairPredicates const & excluded=IMP::kernel::PairPredicates(),
927  IMP::kernel::OptimizerStates const & opt_states=IMP::kernel::OptimizerStates())
928  optimize_balls(IMP::kernel::ParticlesTemp const & ps, IMP::kernel::RestraintsTemp const & rs=IMP::kernel::RestraintsTemp(),
929  IMP::kernel::PairPredicates const & excluded=IMP::kernel::PairPredicates())
930  optimize_balls(IMP::kernel::ParticlesTemp const & ps, IMP::kernel::RestraintsTemp const & rs=IMP::kernel::RestraintsTemp())
931  optimize_balls(IMP::kernel::ParticlesTemp const & ps)
932  """
933  return _IMP_example.optimize_balls(*args)
934 
935 def optimize_assembly(*args):
936  """
937  optimize_assembly(Model m, IMP::kernel::ParticlesTemp const & components, IMP::kernel::RestraintsTemp const & interactions,
938  IMP::kernel::RestraintsTemp const & other_restraints,
939  BoundingBox3D bb, PairScore ev, double cutoff, IMP::kernel::PairPredicates const & excluded=IMP::kernel::PairPredicates())
940  optimize_assembly(Model m, IMP::kernel::ParticlesTemp const & components, IMP::kernel::RestraintsTemp const & interactions,
941  IMP::kernel::RestraintsTemp const & other_restraints,
942  BoundingBox3D bb, PairScore ev, double cutoff)
943  """
944  return _IMP_example.optimize_assembly(*args)
945 
946 def get_number_of_incidences(*args):
947  """get_number_of_incidences(IMP::kernel::ParticlesTemp const & psa, IMP::kernel::ParticlesTemp const & psb, double point_distance) -> unsigned int"""
948  return _IMP_example.get_number_of_incidences(*args)
949 
950 def create_chain_restraint(*args):
951  """create_chain_restraint(IMP::kernel::ParticlesTemp const & ps, double length_factor, double k, std::string name) -> Restraint"""
952  return _IMP_example.create_chain_restraint(*args)
953 
954 def create_excluded_volume(*args):
955  """create_excluded_volume(IMP::kernel::ParticlesTemp const & ps, double k, std::string name) -> ClosePairContainer"""
956  return _IMP_example.create_excluded_volume(*args)
957 class ExampleTemplateClass3D(_object):
958  """Proxy of C++ IMP::example::ExampleTemplateClassD<(3)> class"""
959  __swig_setmethods__ = {}
960  __setattr__ = lambda self, name, value: _swig_setattr(self, ExampleTemplateClass3D, name, value)
961  __swig_getmethods__ = {}
962  __getattr__ = lambda self, name: _swig_getattr(self, ExampleTemplateClass3D, name)
963  def __init__(self, *args):
964  """
965  __init__(IMP::example::ExampleTemplateClassD<(3)> self) -> ExampleTemplateClass3D
966  __init__(IMP::example::ExampleTemplateClassD<(3)> self, Vector3D a, Vector3D b) -> ExampleTemplateClass3D
967  """
968  this = _IMP_example.new_ExampleTemplateClass3D(*args)
969  try: self.this.append(this)
970  except: self.this = this
971  def get_point(self, *args):
972  """get_point(ExampleTemplateClass3D self, unsigned int i) -> Vector3D"""
973  return _IMP_example.ExampleTemplateClass3D_get_point(self, *args)
974 
975  def show(self, *args):
976  """
977  show(ExampleTemplateClass3D self, _ostream out=std::cout)
978  show(ExampleTemplateClass3D self)
979  """
980  return _IMP_example.ExampleTemplateClass3D_show(self, *args)
981 
982  def __str__(self):
983  """__str__(ExampleTemplateClass3D self) -> std::string"""
984  return _IMP_example.ExampleTemplateClass3D___str__(self)
985 
986  def __repr__(self):
987  """__repr__(ExampleTemplateClass3D self) -> std::string"""
988  return _IMP_example.ExampleTemplateClass3D___repr__(self)
989 
990  __swig_destroy__ = _IMP_example.delete_ExampleTemplateClass3D
991  __del__ = lambda self : None;
992 ExampleTemplateClass3D_swigregister = _IMP_example.ExampleTemplateClass3D_swigregister
993 ExampleTemplateClass3D_swigregister(ExampleTemplateClass3D)
994 
995 from _randomize import *
996 
997 
998 def get_module_version():
999  """get_module_version() -> std::string const"""
1000  return _IMP_example.get_module_version()
1001 
1002 def get_example_path(*args):
1003  """get_example_path(std::string fname) -> std::string"""
1004  return _IMP_example.get_example_path(*args)
1005 
1006 def get_data_path(*args):
1007  """get_data_path(std::string fname) -> std::string"""
1008  return _IMP_example.get_data_path(*args)
1009 import _version_check
1010 _version_check.check_version(get_module_version())
1011 
1012 # This file is compatible with both classic and new-style classes.
1013 
1014 
Various classes to hold sets of particles.
void optimize_assembly(kernel::Model *m, const kernel::ParticlesTemp &components, const kernel::RestraintsTemp &interactions, const kernel::RestraintsTemp &other_restraints, const algebra::BoundingBox3D &bb, PairScore *ev, double cutoff, const PairPredicates &excluded=PairPredicates())
Make CGAL functionality available to IMP.
void set_check_level(CheckLevel tf)
Control runtime checks in the code.
Definition: exception.h:73
Low level functionality (logging, error handling, profiling, command line flags etc) that is used by ...
std::string get_data_path(std::string file_name)
Return the full path to installed data.
void optimize_balls(const kernel::ParticlesTemp &ps, const kernel::RestraintsTemp &rs=kernel::RestraintsTemp(), const PairPredicates &excluded=PairPredicates(), const OptimizerStates &opt_states=OptimizerStates(), base::LogLevel ll=base::DEFAULT)
Abstract single variable functor class for score functions.
Composable functors to implement scores via compile-time composition.
Vector3D get_random_vector_in(const Cylinder3D &c)
Generate a random vector in a cylinder with uniform density.
A base class for modifiers of kernel::ParticlesTemp.
Code to compute statistical measures.
kernel::Restraint * create_chain_restraint(const kernel::ParticlesTemp &ps, double length_factor, double k, std::string name)
unsigned int get_number_of_incidences(const kernel::ParticlesTemp &psa, const kernel::ParticlesTemp &psb, double point_distance)
Definition: counting.h:23
Abstract class for scoring object(s) of type ParticlePair.
static XYZR setup_particle(kernel::Model *m, ParticleIndex pi)
Definition: XYZR.h:48
Store a kernel::ParticleIndexes.
Base functionality and abstract base classes for representation, scoring and sampling.
A restraint is a term in an IMP ScoringFunction.
Class to handle individual model particles.
Common base class for heavy weight IMP objects.
Definition: Object.h:106
std::string get_example_path(std::string file_name)
Return the path to installed example data for this module.
container::ClosePairContainer * create_excluded_volume(const kernel::ParticlesTemp &ps, double k, std::string name)
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...
void show(Hierarchy h, std::ostream &out=std::cout)
Print out a molecular hierarchy.
core::MonteCarloMover * create_serial_mover(const kernel::ParticlesTemp &ps)
VectorD< 3 > Vector3D
Definition: VectorD.h:395
Implement a constraint on the Model.
Output IMP model data in various file formats.
CheckLevel get_check_level()
Get the current audit mode.
Definition: exception.h:81
Functionality for loading, creating, manipulating and scoring atomic structures.
Support for the RMF file format for storing hierarchical molecular data and markup.
Divide-and-conquer inferential optimization in discrete space.
Class for storing model, its restraints, constraints, and particles.
Definition: kernel/Model.h:73