IMP  2.2.1
The Integrative Modeling Platform
saxs/__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_saxs', [dirname(__file__)])
19  except ImportError:
20  import _IMP_saxs
21  return _IMP_saxs
22  if fp is not None:
23  try:
24  _mod = imp.load_module('_IMP_saxs', fp, pathname, description)
25  finally:
26  fp.close()
27  return _mod
28  _IMP_saxs = swig_import_helper()
29  del swig_import_helper
30 else:
31  import _IMP_saxs
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_SAXS_SwigPyIterator(_object):
80  """Proxy of C++ swig::IMP_SAXS_SwigPyIterator class"""
81  __swig_setmethods__ = {}
82  __setattr__ = lambda self, name, value: _swig_setattr(self, IMP_SAXS_SwigPyIterator, name, value)
83  __swig_getmethods__ = {}
84  __getattr__ = lambda self, name: _swig_getattr(self, IMP_SAXS_SwigPyIterator, name)
85  def __init__(self, *args, **kwargs): raise AttributeError("No constructor defined - class is abstract")
86  __repr__ = _swig_repr
87  __swig_destroy__ = _IMP_saxs.delete_IMP_SAXS_SwigPyIterator
88  __del__ = lambda self : None;
89  def value(self):
90  """value(IMP_SAXS_SwigPyIterator self) -> PyObject *"""
91  return _IMP_saxs.IMP_SAXS_SwigPyIterator_value(self)
92 
93  def incr(self, n=1):
94  """
95  incr(IMP_SAXS_SwigPyIterator self, size_t n=1) -> IMP_SAXS_SwigPyIterator
96  incr(IMP_SAXS_SwigPyIterator self) -> IMP_SAXS_SwigPyIterator
97  """
98  return _IMP_saxs.IMP_SAXS_SwigPyIterator_incr(self, n)
99 
100  def decr(self, n=1):
101  """
102  decr(IMP_SAXS_SwigPyIterator self, size_t n=1) -> IMP_SAXS_SwigPyIterator
103  decr(IMP_SAXS_SwigPyIterator self) -> IMP_SAXS_SwigPyIterator
104  """
105  return _IMP_saxs.IMP_SAXS_SwigPyIterator_decr(self, n)
106 
107  def distance(self, *args):
108  """distance(IMP_SAXS_SwigPyIterator self, IMP_SAXS_SwigPyIterator x) -> ptrdiff_t"""
109  return _IMP_saxs.IMP_SAXS_SwigPyIterator_distance(self, *args)
110 
111  def equal(self, *args):
112  """equal(IMP_SAXS_SwigPyIterator self, IMP_SAXS_SwigPyIterator x) -> bool"""
113  return _IMP_saxs.IMP_SAXS_SwigPyIterator_equal(self, *args)
114 
115  def copy(self):
116  """copy(IMP_SAXS_SwigPyIterator self) -> IMP_SAXS_SwigPyIterator"""
117  return _IMP_saxs.IMP_SAXS_SwigPyIterator_copy(self)
118 
119  def next(self):
120  """next(IMP_SAXS_SwigPyIterator self) -> PyObject *"""
121  return _IMP_saxs.IMP_SAXS_SwigPyIterator_next(self)
122 
123  def __next__(self):
124  """__next__(IMP_SAXS_SwigPyIterator self) -> PyObject *"""
125  return _IMP_saxs.IMP_SAXS_SwigPyIterator___next__(self)
126 
127  def previous(self):
128  """previous(IMP_SAXS_SwigPyIterator self) -> PyObject *"""
129  return _IMP_saxs.IMP_SAXS_SwigPyIterator_previous(self)
130 
131  def advance(self, *args):
132  """advance(IMP_SAXS_SwigPyIterator self, ptrdiff_t n) -> IMP_SAXS_SwigPyIterator"""
133  return _IMP_saxs.IMP_SAXS_SwigPyIterator_advance(self, *args)
134 
135  def __eq__(self, *args):
136  """__eq__(IMP_SAXS_SwigPyIterator self, IMP_SAXS_SwigPyIterator x) -> bool"""
137  return _IMP_saxs.IMP_SAXS_SwigPyIterator___eq__(self, *args)
138 
139  def __ne__(self, *args):
140  """__ne__(IMP_SAXS_SwigPyIterator self, IMP_SAXS_SwigPyIterator x) -> bool"""
141  return _IMP_saxs.IMP_SAXS_SwigPyIterator___ne__(self, *args)
142 
143  def __iadd__(self, *args):
144  """__iadd__(IMP_SAXS_SwigPyIterator self, ptrdiff_t n) -> IMP_SAXS_SwigPyIterator"""
145  return _IMP_saxs.IMP_SAXS_SwigPyIterator___iadd__(self, *args)
146 
147  def __isub__(self, *args):
148  """__isub__(IMP_SAXS_SwigPyIterator self, ptrdiff_t n) -> IMP_SAXS_SwigPyIterator"""
149  return _IMP_saxs.IMP_SAXS_SwigPyIterator___isub__(self, *args)
150 
151  def __add__(self, *args):
152  """__add__(IMP_SAXS_SwigPyIterator self, ptrdiff_t n) -> IMP_SAXS_SwigPyIterator"""
153  return _IMP_saxs.IMP_SAXS_SwigPyIterator___add__(self, *args)
154 
155  def __sub__(self, *args):
156  """
157  __sub__(IMP_SAXS_SwigPyIterator self, ptrdiff_t n) -> IMP_SAXS_SwigPyIterator
158  __sub__(IMP_SAXS_SwigPyIterator self, IMP_SAXS_SwigPyIterator x) -> ptrdiff_t
159  """
160  return _IMP_saxs.IMP_SAXS_SwigPyIterator___sub__(self, *args)
161 
162  def __iter__(self): return self
163 IMP_SAXS_SwigPyIterator_swigregister = _IMP_saxs.IMP_SAXS_SwigPyIterator_swigregister
164 IMP_SAXS_SwigPyIterator_swigregister(IMP_SAXS_SwigPyIterator)
165 
166 _value_types=[]
167 _object_types=[]
168 _raii_types=[]
169 _plural_types=[]
170 
171 IMP_DEBUG = _IMP_saxs.IMP_DEBUG
172 IMP_RELEASE = _IMP_saxs.IMP_RELEASE
173 IMP_SILENT = _IMP_saxs.IMP_SILENT
174 IMP_PROGRESS = _IMP_saxs.IMP_PROGRESS
175 IMP_TERSE = _IMP_saxs.IMP_TERSE
176 IMP_VERBOSE = _IMP_saxs.IMP_VERBOSE
177 IMP_MEMORY = _IMP_saxs.IMP_MEMORY
178 IMP_NONE = _IMP_saxs.IMP_NONE
179 IMP_USAGE = _IMP_saxs.IMP_USAGE
180 IMP_INTERNAL = _IMP_saxs.IMP_INTERNAL
181 IMP_BASE_HAS_LOG4CXX = _IMP_saxs.IMP_BASE_HAS_LOG4CXX
182 IMP_COMPILER_HAS_AUTO = _IMP_saxs.IMP_COMPILER_HAS_AUTO
183 IMP_COMPILER_HAS_DEBUG_VECTOR = _IMP_saxs.IMP_COMPILER_HAS_DEBUG_VECTOR
184 IMP_BASE_HAS_BOOST_RANDOM = _IMP_saxs.IMP_BASE_HAS_BOOST_RANDOM
185 IMP_BASE_HAS_GPERFTOOLS = _IMP_saxs.IMP_BASE_HAS_GPERFTOOLS
186 IMP_BASE_HAS_TCMALLOC_HEAPCHECKER = _IMP_saxs.IMP_BASE_HAS_TCMALLOC_HEAPCHECKER
187 IMP_BASE_HAS_TCMALLOC_HEAPPROFILER = _IMP_saxs.IMP_BASE_HAS_TCMALLOC_HEAPPROFILER
188 IMPBASE_SHOW_WARNINGS = _IMP_saxs.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_saxs.DEFAULT_CHECK
216 NONE = _IMP_saxs.NONE
217 USAGE = _IMP_saxs.USAGE
218 USAGE_AND_INTERNAL = _IMP_saxs.USAGE_AND_INTERNAL
219 
220 def set_check_level(*args):
221  """set_check_level(IMP::base::CheckLevel tf)"""
222  return _IMP_saxs.set_check_level(*args)
223 
224 def get_check_level():
225  """get_check_level() -> IMP::base::CheckLevel"""
226  return _IMP_saxs.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_saxs._ostream_write(self, *args)
238 
239 _ostream_swigregister = _IMP_saxs._ostream_swigregister
240 _ostream_swigregister(_ostream)
241 
242 IMP_COMPILER_HAS_OVERRIDE = _IMP_saxs.IMP_COMPILER_HAS_OVERRIDE
243 IMP_COMPILER_HAS_FINAL = _IMP_saxs.IMP_COMPILER_HAS_FINAL
244 IMP_HAS_NOEXCEPT = _IMP_saxs.IMP_HAS_NOEXCEPT
245 import IMP.base
246 IMP_CGAL_HAS_BOOST_FILESYSTEM = _IMP_saxs.IMP_CGAL_HAS_BOOST_FILESYSTEM
247 IMP_CGAL_HAS_BOOST_PROGRAMOPTIONS = _IMP_saxs.IMP_CGAL_HAS_BOOST_PROGRAMOPTIONS
248 IMP_CGAL_HAS_BOOST_RANDOM = _IMP_saxs.IMP_CGAL_HAS_BOOST_RANDOM
249 IMP_CGAL_HAS_BOOST_SYSTEM = _IMP_saxs.IMP_CGAL_HAS_BOOST_SYSTEM
250 IMPCGAL_SHOW_WARNINGS = _IMP_saxs.IMPCGAL_SHOW_WARNINGS
251 import IMP.cgal
252 IMP_ALGEBRA_HAS_IMP_CGAL = _IMP_saxs.IMP_ALGEBRA_HAS_IMP_CGAL
253 IMP_ALGEBRA_HAS_BOOST_FILESYSTEM = _IMP_saxs.IMP_ALGEBRA_HAS_BOOST_FILESYSTEM
254 IMP_ALGEBRA_HAS_BOOST_PROGRAMOPTIONS = _IMP_saxs.IMP_ALGEBRA_HAS_BOOST_PROGRAMOPTIONS
255 IMP_ALGEBRA_HAS_BOOST_RANDOM = _IMP_saxs.IMP_ALGEBRA_HAS_BOOST_RANDOM
256 IMP_ALGEBRA_HAS_BOOST_SYSTEM = _IMP_saxs.IMP_ALGEBRA_HAS_BOOST_SYSTEM
257 IMP_ALGEBRA_HAS_CGAL = _IMP_saxs.IMP_ALGEBRA_HAS_CGAL
258 IMP_ALGEBRA_HAS_ANN = _IMP_saxs.IMP_ALGEBRA_HAS_ANN
259 IMPALGEBRA_SHOW_WARNINGS = _IMP_saxs.IMPALGEBRA_SHOW_WARNINGS
260 import IMP.algebra
261 IMP_KERNEL_HAS_IMP_CGAL = _IMP_saxs.IMP_KERNEL_HAS_IMP_CGAL
262 IMP_KERNEL_HAS_BOOST_PROGRAMOPTIONS = _IMP_saxs.IMP_KERNEL_HAS_BOOST_PROGRAMOPTIONS
263 IMP_KERNEL_HAS_BOOST_RANDOM = _IMP_saxs.IMP_KERNEL_HAS_BOOST_RANDOM
264 IMP_KERNEL_HAS_BOOST_SYSTEM = _IMP_saxs.IMP_KERNEL_HAS_BOOST_SYSTEM
265 IMP_KERNEL_HAS_CGAL = _IMP_saxs.IMP_KERNEL_HAS_CGAL
266 IMPKERNEL_SHOW_WARNINGS = _IMP_saxs.IMPKERNEL_SHOW_WARNINGS
267 import IMP.kernel
268 IMP_DISPLAY_HAS_IMP_BASE = _IMP_saxs.IMP_DISPLAY_HAS_IMP_BASE
269 IMP_DISPLAY_HAS_IMP_CGAL = _IMP_saxs.IMP_DISPLAY_HAS_IMP_CGAL
270 IMP_DISPLAY_HAS_BOOST_FILESYSTEM = _IMP_saxs.IMP_DISPLAY_HAS_BOOST_FILESYSTEM
271 IMP_DISPLAY_HAS_BOOST_PROGRAMOPTIONS = _IMP_saxs.IMP_DISPLAY_HAS_BOOST_PROGRAMOPTIONS
272 IMP_DISPLAY_HAS_BOOST_RANDOM = _IMP_saxs.IMP_DISPLAY_HAS_BOOST_RANDOM
273 IMP_DISPLAY_HAS_BOOST_SYSTEM = _IMP_saxs.IMP_DISPLAY_HAS_BOOST_SYSTEM
274 IMP_DISPLAY_HAS_CGAL = _IMP_saxs.IMP_DISPLAY_HAS_CGAL
275 IMPDISPLAY_SHOW_WARNINGS = _IMP_saxs.IMPDISPLAY_SHOW_WARNINGS
276 import IMP.display
277 IMP_SCORE_FUNCTOR_HAS_IMP_CGAL = _IMP_saxs.IMP_SCORE_FUNCTOR_HAS_IMP_CGAL
278 IMP_SCORE_FUNCTOR_HAS_BOOST_FILESYSTEM = _IMP_saxs.IMP_SCORE_FUNCTOR_HAS_BOOST_FILESYSTEM
279 IMP_SCORE_FUNCTOR_HAS_BOOST_PROGRAMOPTIONS = _IMP_saxs.IMP_SCORE_FUNCTOR_HAS_BOOST_PROGRAMOPTIONS
280 IMP_SCORE_FUNCTOR_HAS_BOOST_RANDOM = _IMP_saxs.IMP_SCORE_FUNCTOR_HAS_BOOST_RANDOM
281 IMP_SCORE_FUNCTOR_HAS_BOOST_SYSTEM = _IMP_saxs.IMP_SCORE_FUNCTOR_HAS_BOOST_SYSTEM
282 IMP_SCORE_FUNCTOR_HAS_CGAL = _IMP_saxs.IMP_SCORE_FUNCTOR_HAS_CGAL
283 IMP_SCORE_FUNCTOR_HAS_HDF5 = _IMP_saxs.IMP_SCORE_FUNCTOR_HAS_HDF5
284 IMPSCOREFUNCTOR_SHOW_WARNINGS = _IMP_saxs.IMPSCOREFUNCTOR_SHOW_WARNINGS
285 import IMP.score_functor
286 IMP_CORE_HAS_IMP_BASE = _IMP_saxs.IMP_CORE_HAS_IMP_BASE
287 IMP_CORE_HAS_IMP_CGAL = _IMP_saxs.IMP_CORE_HAS_IMP_CGAL
288 IMP_CORE_HAS_IMP_KERNEL = _IMP_saxs.IMP_CORE_HAS_IMP_KERNEL
289 IMP_CORE_HAS_BOOST_FILESYSTEM = _IMP_saxs.IMP_CORE_HAS_BOOST_FILESYSTEM
290 IMP_CORE_HAS_BOOST_PROGRAMOPTIONS = _IMP_saxs.IMP_CORE_HAS_BOOST_PROGRAMOPTIONS
291 IMP_CORE_HAS_BOOST_RANDOM = _IMP_saxs.IMP_CORE_HAS_BOOST_RANDOM
292 IMP_CORE_HAS_BOOST_SYSTEM = _IMP_saxs.IMP_CORE_HAS_BOOST_SYSTEM
293 IMP_CORE_HAS_CGAL = _IMP_saxs.IMP_CORE_HAS_CGAL
294 IMP_CORE_HAS_HDF5 = _IMP_saxs.IMP_CORE_HAS_HDF5
295 IMPCORE_SHOW_WARNINGS = _IMP_saxs.IMPCORE_SHOW_WARNINGS
296 import IMP.core
297 IMP_CONTAINER_HAS_IMP_ALGEBRA = _IMP_saxs.IMP_CONTAINER_HAS_IMP_ALGEBRA
298 IMP_CONTAINER_HAS_IMP_BASE = _IMP_saxs.IMP_CONTAINER_HAS_IMP_BASE
299 IMP_CONTAINER_HAS_IMP_CGAL = _IMP_saxs.IMP_CONTAINER_HAS_IMP_CGAL
300 IMP_CONTAINER_HAS_IMP_DISPLAY = _IMP_saxs.IMP_CONTAINER_HAS_IMP_DISPLAY
301 IMP_CONTAINER_HAS_IMP_KERNEL = _IMP_saxs.IMP_CONTAINER_HAS_IMP_KERNEL
302 IMP_CONTAINER_HAS_IMP_SCORE_FUNCTOR = _IMP_saxs.IMP_CONTAINER_HAS_IMP_SCORE_FUNCTOR
303 IMP_CONTAINER_HAS_BOOST_FILESYSTEM = _IMP_saxs.IMP_CONTAINER_HAS_BOOST_FILESYSTEM
304 IMP_CONTAINER_HAS_BOOST_PROGRAMOPTIONS = _IMP_saxs.IMP_CONTAINER_HAS_BOOST_PROGRAMOPTIONS
305 IMP_CONTAINER_HAS_BOOST_RANDOM = _IMP_saxs.IMP_CONTAINER_HAS_BOOST_RANDOM
306 IMP_CONTAINER_HAS_BOOST_SYSTEM = _IMP_saxs.IMP_CONTAINER_HAS_BOOST_SYSTEM
307 IMP_CONTAINER_HAS_CGAL = _IMP_saxs.IMP_CONTAINER_HAS_CGAL
308 IMP_CONTAINER_HAS_HDF5 = _IMP_saxs.IMP_CONTAINER_HAS_HDF5
309 IMPCONTAINER_SHOW_WARNINGS = _IMP_saxs.IMPCONTAINER_SHOW_WARNINGS
310 import IMP.container
311 IMP_ATOM_HAS_IMP_BASE = _IMP_saxs.IMP_ATOM_HAS_IMP_BASE
312 IMP_ATOM_HAS_IMP_CGAL = _IMP_saxs.IMP_ATOM_HAS_IMP_CGAL
313 IMP_ATOM_HAS_IMP_KERNEL = _IMP_saxs.IMP_ATOM_HAS_IMP_KERNEL
314 IMP_ATOM_HAS_IMP_SCORE_FUNCTOR = _IMP_saxs.IMP_ATOM_HAS_IMP_SCORE_FUNCTOR
315 IMP_ATOM_HAS_BOOST_PROGRAMOPTIONS = _IMP_saxs.IMP_ATOM_HAS_BOOST_PROGRAMOPTIONS
316 IMP_ATOM_HAS_BOOST_RANDOM = _IMP_saxs.IMP_ATOM_HAS_BOOST_RANDOM
317 IMP_ATOM_HAS_BOOST_REGEX = _IMP_saxs.IMP_ATOM_HAS_BOOST_REGEX
318 IMP_ATOM_HAS_BOOST_SYSTEM = _IMP_saxs.IMP_ATOM_HAS_BOOST_SYSTEM
319 IMP_ATOM_HAS_CGAL = _IMP_saxs.IMP_ATOM_HAS_CGAL
320 IMP_ATOM_HAS_HDF5 = _IMP_saxs.IMP_ATOM_HAS_HDF5
321 IMPATOM_SHOW_WARNINGS = _IMP_saxs.IMPATOM_SHOW_WARNINGS
322 IMP_ATOM_TYPE_INDEX = _IMP_saxs.IMP_ATOM_TYPE_INDEX
323 IMP_RESIDUE_TYPE_INDEX = _IMP_saxs.IMP_RESIDUE_TYPE_INDEX
324 IMP_HIERARCHY_TYPE_INDEX = _IMP_saxs.IMP_HIERARCHY_TYPE_INDEX
325 import IMP.atom
326 IMP_SAXS_HAS_IMP_BASE = _IMP_saxs.IMP_SAXS_HAS_IMP_BASE
327 IMP_SAXS_HAS_IMP_CGAL = _IMP_saxs.IMP_SAXS_HAS_IMP_CGAL
328 IMP_SAXS_HAS_IMP_CONTAINER = _IMP_saxs.IMP_SAXS_HAS_IMP_CONTAINER
329 IMP_SAXS_HAS_IMP_DISPLAY = _IMP_saxs.IMP_SAXS_HAS_IMP_DISPLAY
330 IMP_SAXS_HAS_IMP_KERNEL = _IMP_saxs.IMP_SAXS_HAS_IMP_KERNEL
331 IMP_SAXS_HAS_IMP_SCORE_FUNCTOR = _IMP_saxs.IMP_SAXS_HAS_IMP_SCORE_FUNCTOR
332 IMP_SAXS_HAS_BOOST_FILESYSTEM = _IMP_saxs.IMP_SAXS_HAS_BOOST_FILESYSTEM
333 IMP_SAXS_HAS_BOOST_PROGRAMOPTIONS = _IMP_saxs.IMP_SAXS_HAS_BOOST_PROGRAMOPTIONS
334 IMP_SAXS_HAS_BOOST_RANDOM = _IMP_saxs.IMP_SAXS_HAS_BOOST_RANDOM
335 IMP_SAXS_HAS_BOOST_REGEX = _IMP_saxs.IMP_SAXS_HAS_BOOST_REGEX
336 IMP_SAXS_HAS_BOOST_SYSTEM = _IMP_saxs.IMP_SAXS_HAS_BOOST_SYSTEM
337 IMP_SAXS_HAS_CGAL = _IMP_saxs.IMP_SAXS_HAS_CGAL
338 IMP_SAXS_HAS_HDF5 = _IMP_saxs.IMP_SAXS_HAS_HDF5
339 IMPSAXS_SHOW_WARNINGS = _IMP_saxs.IMPSAXS_SHOW_WARNINGS
340 class DistBase(_object):
341  """Proxy of C++ std::vector<(double)> class"""
342  __swig_setmethods__ = {}
343  __setattr__ = lambda self, name, value: _swig_setattr(self, DistBase, name, value)
344  __swig_getmethods__ = {}
345  __getattr__ = lambda self, name: _swig_getattr(self, DistBase, name)
346  __repr__ = _swig_repr
347  def iterator(self):
348  """iterator(DistBase self) -> IMP_SAXS_SwigPyIterator"""
349  return _IMP_saxs.DistBase_iterator(self)
350 
351  def __iter__(self): return self.iterator()
352  def __nonzero__(self):
353  """__nonzero__(DistBase self) -> bool"""
354  return _IMP_saxs.DistBase___nonzero__(self)
355 
356  def __bool__(self):
357  """__bool__(DistBase self) -> bool"""
358  return _IMP_saxs.DistBase___bool__(self)
359 
360  def __len__(self):
361  """__len__(DistBase self) -> std::vector< double >::size_type"""
362  return _IMP_saxs.DistBase___len__(self)
363 
364  def pop(self):
365  """pop(DistBase self) -> std::vector< double >::value_type"""
366  return _IMP_saxs.DistBase_pop(self)
367 
368  def __getslice__(self, *args):
369  """__getslice__(DistBase self, std::vector< double >::difference_type i, std::vector< double >::difference_type j) -> DistBase"""
370  return _IMP_saxs.DistBase___getslice__(self, *args)
371 
372  def __setslice__(self, *args):
373  """
374  __setslice__(DistBase self, std::vector< double >::difference_type i, std::vector< double >::difference_type j,
375  DistBase v=std::vector< double,std::allocator< double > >())
376  __setslice__(DistBase self, std::vector< double >::difference_type i, std::vector< double >::difference_type j)
377  """
378  return _IMP_saxs.DistBase___setslice__(self, *args)
379 
380  def __delslice__(self, *args):
381  """__delslice__(DistBase self, std::vector< double >::difference_type i, std::vector< double >::difference_type j)"""
382  return _IMP_saxs.DistBase___delslice__(self, *args)
383 
384  def __delitem__(self, *args):
385  """
386  __delitem__(DistBase self, std::vector< double >::difference_type i)
387  __delitem__(DistBase self, PySliceObject * slice)
388  """
389  return _IMP_saxs.DistBase___delitem__(self, *args)
390 
391  def __getitem__(self, *args):
392  """
393  __getitem__(DistBase self, PySliceObject * slice) -> DistBase
394  __getitem__(DistBase self, std::vector< double >::difference_type i) -> std::vector< double >::value_type const &
395  """
396  return _IMP_saxs.DistBase___getitem__(self, *args)
397 
398  def __setitem__(self, *args):
399  """
400  __setitem__(DistBase self, PySliceObject * slice, DistBase v)
401  __setitem__(DistBase self, PySliceObject * slice)
402  __setitem__(DistBase self, std::vector< double >::difference_type i, std::vector< double >::value_type const & x)
403  """
404  return _IMP_saxs.DistBase___setitem__(self, *args)
405 
406  def append(self, *args):
407  """append(DistBase self, std::vector< double >::value_type const & x)"""
408  return _IMP_saxs.DistBase_append(self, *args)
409 
410  def empty(self):
411  """empty(DistBase self) -> bool"""
412  return _IMP_saxs.DistBase_empty(self)
413 
414  def size(self):
415  """size(DistBase self) -> std::vector< double >::size_type"""
416  return _IMP_saxs.DistBase_size(self)
417 
418  def clear(self):
419  """clear(DistBase self)"""
420  return _IMP_saxs.DistBase_clear(self)
421 
422  def swap(self, *args):
423  """swap(DistBase self, DistBase v)"""
424  return _IMP_saxs.DistBase_swap(self, *args)
425 
426  def get_allocator(self):
427  """get_allocator(DistBase self) -> std::vector< double >::allocator_type"""
428  return _IMP_saxs.DistBase_get_allocator(self)
429 
430  def begin(self):
431  """begin(DistBase self) -> std::vector< double >::iterator"""
432  return _IMP_saxs.DistBase_begin(self)
433 
434  def end(self):
435  """end(DistBase self) -> std::vector< double >::iterator"""
436  return _IMP_saxs.DistBase_end(self)
437 
438  def rbegin(self):
439  """rbegin(DistBase self) -> std::vector< double >::reverse_iterator"""
440  return _IMP_saxs.DistBase_rbegin(self)
441 
442  def rend(self):
443  """rend(DistBase self) -> std::vector< double >::reverse_iterator"""
444  return _IMP_saxs.DistBase_rend(self)
445 
446  def pop_back(self):
447  """pop_back(DistBase self)"""
448  return _IMP_saxs.DistBase_pop_back(self)
449 
450  def erase(self, *args):
451  """
452  erase(DistBase self, std::vector< double >::iterator pos) -> std::vector< double >::iterator
453  erase(DistBase self, std::vector< double >::iterator first, std::vector< double >::iterator last) -> std::vector< double >::iterator
454  """
455  return _IMP_saxs.DistBase_erase(self, *args)
456 
457  def __init__(self, *args):
458  """
459  __init__(std::vector<(double)> self) -> DistBase
460  __init__(std::vector<(double)> self, DistBase arg2) -> DistBase
461  __init__(std::vector<(double)> self, std::vector< double >::size_type size) -> DistBase
462  __init__(std::vector<(double)> self, std::vector< double >::size_type size, std::vector< double >::value_type const & value) -> DistBase
463  """
464  this = _IMP_saxs.new_DistBase(*args)
465  try: self.this.append(this)
466  except: self.this = this
467  def push_back(self, *args):
468  """push_back(DistBase self, std::vector< double >::value_type const & x)"""
469  return _IMP_saxs.DistBase_push_back(self, *args)
470 
471  def front(self):
472  """front(DistBase self) -> std::vector< double >::value_type const &"""
473  return _IMP_saxs.DistBase_front(self)
474 
475  def back(self):
476  """back(DistBase self) -> std::vector< double >::value_type const &"""
477  return _IMP_saxs.DistBase_back(self)
478 
479  def assign(self, *args):
480  """assign(DistBase self, std::vector< double >::size_type n, std::vector< double >::value_type const & x)"""
481  return _IMP_saxs.DistBase_assign(self, *args)
482 
483  def resize(self, *args):
484  """
485  resize(DistBase self, std::vector< double >::size_type new_size)
486  resize(DistBase self, std::vector< double >::size_type new_size, std::vector< double >::value_type const & x)
487  """
488  return _IMP_saxs.DistBase_resize(self, *args)
489 
490  def insert(self, *args):
491  """
492  insert(DistBase self, std::vector< double >::iterator pos, std::vector< double >::value_type const & x) -> std::vector< double >::iterator
493  insert(DistBase self, std::vector< double >::iterator pos, std::vector< double >::size_type n, std::vector< double >::value_type const & x)
494  """
495  return _IMP_saxs.DistBase_insert(self, *args)
496 
497  def reserve(self, *args):
498  """reserve(DistBase self, std::vector< double >::size_type n)"""
499  return _IMP_saxs.DistBase_reserve(self, *args)
500 
501  def capacity(self):
502  """capacity(DistBase self) -> std::vector< double >::size_type"""
503  return _IMP_saxs.DistBase_capacity(self)
504 
505  __swig_destroy__ = _IMP_saxs.delete_DistBase
506  __del__ = lambda self : None;
507 DistBase_swigregister = _IMP_saxs.DistBase_swigregister
508 DistBase_swigregister(DistBase)
509 
510 _object_types.append("Profile")
511 
512 
513 def _object_cast_to_Profile(*args):
514  """_object_cast_to_Profile(Object o) -> Profile"""
515  return _IMP_saxs._object_cast_to_Profile(*args)
516 ALL_ATOMS = _IMP_saxs.ALL_ATOMS
517 HEAVY_ATOMS = _IMP_saxs.HEAVY_ATOMS
518 CA_ATOMS = _IMP_saxs.CA_ATOMS
519 class FormFactorTable(_object):
520  """Proxy of C++ IMP::saxs::FormFactorTable class"""
521  __swig_setmethods__ = {}
522  __setattr__ = lambda self, name, value: _swig_setattr(self, FormFactorTable, name, value)
523  __swig_getmethods__ = {}
524  __getattr__ = lambda self, name: _swig_getattr(self, FormFactorTable, name)
525  __repr__ = _swig_repr
526  def __init__(self, *args):
527  """
528  __init__(IMP::saxs::FormFactorTable self) -> FormFactorTable
529  __init__(IMP::saxs::FormFactorTable self, IMP::String const & table_name, IMP::Float min_q, IMP::Float max_q, IMP::Float delta_q) -> FormFactorTable
530  """
531  this = _IMP_saxs.new_FormFactorTable(*args)
532  try: self.this.append(this)
533  except: self.this = this
534  def get_form_factor(self, *args):
535  """
536  get_form_factor(FormFactorTable self, Particle p, IMP::saxs::FormFactorType ff_type=HEAVY_ATOMS) -> IMP::Float
537  get_form_factor(FormFactorTable self, Particle p) -> IMP::Float
538  """
539  return _IMP_saxs.FormFactorTable_get_form_factor(self, *args)
540 
541  def get_vacuum_form_factor(self, *args):
542  """
543  get_vacuum_form_factor(FormFactorTable self, Particle p, IMP::saxs::FormFactorType ff_type=HEAVY_ATOMS) -> IMP::Float
544  get_vacuum_form_factor(FormFactorTable self, Particle p) -> IMP::Float
545  """
546  return _IMP_saxs.FormFactorTable_get_vacuum_form_factor(self, *args)
547 
548  def get_dummy_form_factor(self, *args):
549  """
550  get_dummy_form_factor(FormFactorTable self, Particle p, IMP::saxs::FormFactorType ff_type=HEAVY_ATOMS) -> IMP::Float
551  get_dummy_form_factor(FormFactorTable self, Particle p) -> IMP::Float
552  """
553  return _IMP_saxs.FormFactorTable_get_dummy_form_factor(self, *args)
554 
555  def get_water_form_factor(self):
556  """get_water_form_factor(FormFactorTable self) -> IMP::Float"""
557  return _IMP_saxs.FormFactorTable_get_water_form_factor(self)
558 
559  def get_vacuum_water_form_factor(self):
560  """get_vacuum_water_form_factor(FormFactorTable self) -> IMP::Float"""
561  return _IMP_saxs.FormFactorTable_get_vacuum_water_form_factor(self)
562 
563  def get_dummy_water_form_factor(self):
564  """get_dummy_water_form_factor(FormFactorTable self) -> IMP::Float"""
565  return _IMP_saxs.FormFactorTable_get_dummy_water_form_factor(self)
566 
567  def get_form_factors(self, *args):
568  """
569  get_form_factors(FormFactorTable self, Particle p, IMP::saxs::FormFactorType ff_type=HEAVY_ATOMS) -> IMP::Floats const
570  get_form_factors(FormFactorTable self, Particle p) -> IMP::Floats const &
571  """
572  return _IMP_saxs.FormFactorTable_get_form_factors(self, *args)
573 
574  def get_vacuum_form_factors(self, *args):
575  """
576  get_vacuum_form_factors(FormFactorTable self, Particle p, IMP::saxs::FormFactorType ff_type=HEAVY_ATOMS) -> IMP::Floats const
577  get_vacuum_form_factors(FormFactorTable self, Particle p) -> IMP::Floats const &
578  """
579  return _IMP_saxs.FormFactorTable_get_vacuum_form_factors(self, *args)
580 
581  def get_dummy_form_factors(self, *args):
582  """
583  get_dummy_form_factors(FormFactorTable self, Particle p, IMP::saxs::FormFactorType ff_type=HEAVY_ATOMS) -> IMP::Floats const
584  get_dummy_form_factors(FormFactorTable self, Particle p) -> IMP::Floats const &
585  """
586  return _IMP_saxs.FormFactorTable_get_dummy_form_factors(self, *args)
587 
588  def get_water_form_factors(self):
589  """get_water_form_factors(FormFactorTable self) -> IMP::Floats const &"""
590  return _IMP_saxs.FormFactorTable_get_water_form_factors(self)
591 
592  def get_water_vacuum_form_factors(self):
593  """get_water_vacuum_form_factors(FormFactorTable self) -> IMP::Floats const &"""
594  return _IMP_saxs.FormFactorTable_get_water_vacuum_form_factors(self)
595 
596  def get_water_dummy_form_factors(self):
597  """get_water_dummy_form_factors(FormFactorTable self) -> IMP::Floats const &"""
598  return _IMP_saxs.FormFactorTable_get_water_dummy_form_factors(self)
599 
600  def get_radius(self, *args):
601  """
602  get_radius(FormFactorTable self, Particle p, IMP::saxs::FormFactorType ff_type=HEAVY_ATOMS) -> IMP::Float
603  get_radius(FormFactorTable self, Particle p) -> IMP::Float
604  """
605  return _IMP_saxs.FormFactorTable_get_radius(self, *args)
606 
607  def get_volume(self, *args):
608  """
609  get_volume(FormFactorTable self, Particle p, IMP::saxs::FormFactorType ff_type=HEAVY_ATOMS) -> IMP::Float
610  get_volume(FormFactorTable self, Particle p) -> IMP::Float
611  """
612  return _IMP_saxs.FormFactorTable_get_volume(self, *args)
613 
614  def show(self, *args):
615  """
616  show(FormFactorTable self, _ostream out=std::cout, std::string prefix="")
617  show(FormFactorTable self, _ostream out=std::cout)
618  show(FormFactorTable self)
619  """
620  return _IMP_saxs.FormFactorTable_show(self, *args)
621 
622  __swig_setmethods__["rho_"] = _IMP_saxs.FormFactorTable_rho__set
623  __swig_getmethods__["rho_"] = _IMP_saxs.FormFactorTable_rho__get
624  if _newclass:rho_ = _swig_property(_IMP_saxs.FormFactorTable_rho__get, _IMP_saxs.FormFactorTable_rho__set)
625  __swig_destroy__ = _IMP_saxs.delete_FormFactorTable
626  __del__ = lambda self : None;
627 FormFactorTable_swigregister = _IMP_saxs.FormFactorTable_swigregister
628 FormFactorTable_swigregister(FormFactorTable)
629 cvar = _IMP_saxs.cvar
630 
631 
633  """default_form_factor_table() -> FormFactorTable"""
634  return _IMP_saxs.default_form_factor_table()
635 class Profile(IMP.base.Object):
636  """Proxy of C++ IMP::saxs::Profile class"""
637  __swig_setmethods__ = {}
638  for _s in [IMP.base.Object]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
639  __setattr__ = lambda self, name, value: _swig_setattr(self, Profile, name, value)
640  __swig_getmethods__ = {}
641  for _s in [IMP.base.Object]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
642  __getattr__ = lambda self, name: _swig_getattr(self, Profile, name)
643  def __init__(self, *args):
644  """
645  __init__(IMP::saxs::Profile self, IMP::String const & file_name, bool fit_file=False) -> Profile
646  __init__(IMP::saxs::Profile self, IMP::String const & file_name) -> Profile
647  __init__(IMP::saxs::Profile self, IMP::Float qmin=0.0, IMP::Float qmax=0.5, IMP::Float delta=0.005) -> Profile
648  __init__(IMP::saxs::Profile self, IMP::Float qmin=0.0, IMP::Float qmax=0.5) -> Profile
649  __init__(IMP::saxs::Profile self, IMP::Float qmin=0.0) -> Profile
650  __init__(IMP::saxs::Profile self) -> Profile
651  """
652  this = _IMP_saxs.new_Profile(*args)
653  try: self.this.append(this)
654  except: self.this = this
655  def calculate_profile_partial(self, *args):
656  """
657  calculate_profile_partial(Profile self, IMP::kernel::Particles const & particles, IMP::Floats const & surface=IMP::Floats(),
658  IMP::saxs::FormFactorType ff_type=HEAVY_ATOMS)
659  calculate_profile_partial(Profile self, IMP::kernel::Particles const & particles, IMP::Floats const & surface=IMP::Floats())
660  calculate_profile_partial(Profile self, IMP::kernel::Particles const & particles)
661  calculate_profile_partial(Profile self, IMP::kernel::Particles const & particles1, IMP::kernel::Particles const & particles2,
662  IMP::Floats const & surface1=IMP::Floats(), IMP::Floats const & surface2=IMP::Floats(),
663  IMP::saxs::FormFactorType ff_type=HEAVY_ATOMS)
664  calculate_profile_partial(Profile self, IMP::kernel::Particles const & particles1, IMP::kernel::Particles const & particles2,
665  IMP::Floats const & surface1=IMP::Floats(), IMP::Floats const & surface2=IMP::Floats())
666  calculate_profile_partial(Profile self, IMP::kernel::Particles const & particles1, IMP::kernel::Particles const & particles2,
667  IMP::Floats const & surface1=IMP::Floats())
668  calculate_profile_partial(Profile self, IMP::kernel::Particles const & particles1, IMP::kernel::Particles const & particles2)
669  """
670  return _IMP_saxs.Profile_calculate_profile_partial(self, *args)
671 
672  def calculate_profile_reciprocal_partial(self, *args):
673  """
674  calculate_profile_reciprocal_partial(Profile self, IMP::kernel::Particles const & particles, IMP::Floats const & surface=IMP::Floats(),
675  IMP::saxs::FormFactorType ff_type=HEAVY_ATOMS)
676  calculate_profile_reciprocal_partial(Profile self, IMP::kernel::Particles const & particles, IMP::Floats const & surface=IMP::Floats())
677  calculate_profile_reciprocal_partial(Profile self, IMP::kernel::Particles const & particles)
678  """
679  return _IMP_saxs.Profile_calculate_profile_reciprocal_partial(self, *args)
680 
681  def calculate_profile(self, *args):
682  """
683  calculate_profile(Profile self, IMP::kernel::Particles const & particles, IMP::saxs::FormFactorType ff_type=HEAVY_ATOMS,
684  bool reciprocal=False)
685  calculate_profile(Profile self, IMP::kernel::Particles const & particles, IMP::saxs::FormFactorType ff_type=HEAVY_ATOMS)
686  calculate_profile(Profile self, IMP::kernel::Particles const & particles)
687  calculate_profile(Profile self, IMP::kernel::Particles const & particles1, IMP::kernel::Particles const & particles2,
688  IMP::saxs::FormFactorType ff_type=HEAVY_ATOMS)
689  calculate_profile(Profile self, IMP::kernel::Particles const & particles1, IMP::kernel::Particles const & particles2)
690  """
691  return _IMP_saxs.Profile_calculate_profile(self, *args)
692 
693  def calculate_I0(self, *args):
694  """
695  calculate_I0(Profile self, IMP::kernel::Particles const & particles, IMP::saxs::FormFactorType ff_type=HEAVY_ATOMS) -> IMP::Float
696  calculate_I0(Profile self, IMP::kernel::Particles const & particles) -> IMP::Float
697  """
698  return _IMP_saxs.Profile_calculate_I0(self, *args)
699 
700  def calculate_profile_constant_form_factor(self, *args):
701  """
702  calculate_profile_constant_form_factor(Profile self, IMP::kernel::Particles const & particles, IMP::Float form_factor=1.0)
703  calculate_profile_constant_form_factor(Profile self, IMP::kernel::Particles const & particles)
704  """
705  return _IMP_saxs.Profile_calculate_profile_constant_form_factor(self, *args)
706 
707  def calculate_profile_symmetric(self, *args):
708  """
709  calculate_profile_symmetric(Profile self, IMP::kernel::Particles const & particles, unsigned int n, IMP::saxs::FormFactorType ff_type=HEAVY_ATOMS)
710  calculate_profile_symmetric(Profile self, IMP::kernel::Particles const & particles, unsigned int n)
711  """
712  return _IMP_saxs.Profile_calculate_profile_symmetric(self, *args)
713 
714  def profile_2_distribution(self, *args):
715  """profile_2_distribution(Profile self, RadialDistributionFunction rd, IMP::Float max_distance)"""
716  return _IMP_saxs.Profile_profile_2_distribution(self, *args)
717 
718  def distribution_2_profile(self, *args):
719  """distribution_2_profile(Profile self, RadialDistributionFunction r_dist)"""
720  return _IMP_saxs.Profile_distribution_2_profile(self, *args)
721 
722  def resample(self, *args):
723  """
724  resample(Profile self, Profile exp_profile, Profile resampled_profile, bool partial_profiles=False)
725  resample(Profile self, Profile exp_profile, Profile resampled_profile)
726  """
727  return _IMP_saxs.Profile_resample(self, *args)
728 
729  def downsample(self, *args):
730  """downsample(Profile self, Profile downsampled_profile, unsigned int point_number)"""
731  return _IMP_saxs.Profile_downsample(self, *args)
732 
733  def radius_of_gyration(self, end_q_rg=1.3):
734  """
735  radius_of_gyration(Profile self, double end_q_rg=1.3) -> double
736  radius_of_gyration(Profile self) -> double
737  """
738  return _IMP_saxs.Profile_radius_of_gyration(self, end_q_rg)
739 
740  def read_SAXS_file(self, *args):
741  """
742  read_SAXS_file(Profile self, IMP::String const & file_name, bool fit_file=False)
743  read_SAXS_file(Profile self, IMP::String const & file_name)
744  """
745  return _IMP_saxs.Profile_read_SAXS_file(self, *args)
746 
747  def write_SAXS_file(self, *args):
748  """
749  write_SAXS_file(Profile self, IMP::String const & file_name, IMP::Float max_q=0.0)
750  write_SAXS_file(Profile self, IMP::String const & file_name)
751  """
752  return _IMP_saxs.Profile_write_SAXS_file(self, *args)
753 
754  def read_partial_profiles(self, *args):
755  """read_partial_profiles(Profile self, IMP::String const & file_name)"""
756  return _IMP_saxs.Profile_read_partial_profiles(self, *args)
757 
758  def write_partial_profiles(self, *args):
759  """write_partial_profiles(Profile self, IMP::String const & file_name)"""
760  return _IMP_saxs.Profile_write_partial_profiles(self, *args)
761 
762  def get_delta_q(self):
763  """get_delta_q(Profile self) -> IMP::Float"""
764  return _IMP_saxs.Profile_get_delta_q(self)
765 
766  def get_min_q(self):
767  """get_min_q(Profile self) -> IMP::Float"""
768  return _IMP_saxs.Profile_get_min_q(self)
769 
770  def get_max_q(self):
771  """get_max_q(Profile self) -> IMP::Float"""
772  return _IMP_saxs.Profile_get_max_q(self)
773 
774  def get_intensity(self, *args):
775  """get_intensity(Profile self, unsigned int i) -> IMP::Float"""
776  return _IMP_saxs.Profile_get_intensity(self, *args)
777 
778  def get_q(self, *args):
779  """get_q(Profile self, unsigned int i) -> IMP::Float"""
780  return _IMP_saxs.Profile_get_q(self, *args)
781 
782  def get_error(self, *args):
783  """get_error(Profile self, unsigned int i) -> IMP::Float"""
784  return _IMP_saxs.Profile_get_error(self, *args)
785 
786  def get_weight(self, *args):
787  """get_weight(Profile self, unsigned int i) -> IMP::Float"""
788  return _IMP_saxs.Profile_get_weight(self, *args)
789 
790  def get_average_radius(self):
791  """get_average_radius(Profile self) -> IMP::Float"""
792  return _IMP_saxs.Profile_get_average_radius(self)
793 
794  def size(self):
795  """size(Profile self) -> unsigned int"""
796  return _IMP_saxs.Profile_size(self)
797 
798  def is_uniform_sampling(self):
799  """is_uniform_sampling(Profile self) -> bool"""
800  return _IMP_saxs.Profile_is_uniform_sampling(self)
801 
802  def get_name(self):
803  """get_name(Profile self) -> std::string"""
804  return _IMP_saxs.Profile_get_name(self)
805 
806  def get_id(self):
807  """get_id(Profile self) -> unsigned int"""
808  return _IMP_saxs.Profile_get_id(self)
809 
810  def set_intensity(self, *args):
811  """set_intensity(Profile self, unsigned int i, IMP::Float iq)"""
812  return _IMP_saxs.Profile_set_intensity(self, *args)
813 
814  def set_ff_table(self, *args):
815  """set_ff_table(Profile self, FormFactorTable ff_table)"""
816  return _IMP_saxs.Profile_set_ff_table(self, *args)
817 
818  def set_average_radius(self, *args):
819  """set_average_radius(Profile self, IMP::Float r)"""
820  return _IMP_saxs.Profile_set_average_radius(self, *args)
821 
822  def set_average_volume(self, *args):
823  """set_average_volume(Profile self, IMP::Float v)"""
824  return _IMP_saxs.Profile_set_average_volume(self, *args)
825 
826  def set_name(self, *args):
827  """set_name(Profile self, std::string name)"""
828  return _IMP_saxs.Profile_set_name(self, *args)
829 
830  def set_id(self, *args):
831  """set_id(Profile self, unsigned int id)"""
832  return _IMP_saxs.Profile_set_id(self, *args)
833 
834  def add_entry(self, *args):
835  """
836  add_entry(Profile self, IMP::Float q, IMP::Float intensity, IMP::Float error=1.0)
837  add_entry(Profile self, IMP::Float q, IMP::Float intensity)
838  """
839  return _IMP_saxs.Profile_add_entry(self, *args)
840 
841  def add_errors(self):
842  """add_errors(Profile self)"""
843  return _IMP_saxs.Profile_add_errors(self)
844 
845  def add_noise(self, percentage=0.03):
846  """
847  add_noise(Profile self, IMP::Float percentage=0.03)
848  add_noise(Profile self)
849  """
850  return _IMP_saxs.Profile_add_noise(self, percentage)
851 
852  def sum_partial_profiles(self, *args):
853  """sum_partial_profiles(Profile self, IMP::Float c1, IMP::Float c2)"""
854  return _IMP_saxs.Profile_sum_partial_profiles(self, *args)
855 
856  def add(self, *args):
857  """
858  add(Profile self, Profile other_profile, IMP::Float weight=1.0)
859  add(Profile self, Profile other_profile)
860  add(Profile self, std::vector< IMP::saxs::Profile *,std::allocator< IMP::saxs::Profile * > > const & profiles,
861  DistBase weights=std::vector< IMP::Float >())
862  add(Profile self, std::vector< IMP::saxs::Profile *,std::allocator< IMP::saxs::Profile * > > const & profiles)
863  """
864  return _IMP_saxs.Profile_add(self, *args)
865 
866  def add_partial_profiles(self, *args):
867  """
868  add_partial_profiles(Profile self, Profile other_profile, IMP::Float weight=1.0)
869  add_partial_profiles(Profile self, Profile other_profile)
870  add_partial_profiles(Profile self, std::vector< IMP::saxs::Profile *,std::allocator< IMP::saxs::Profile * > > const & profiles,
871  DistBase weights=std::vector< IMP::Float >())
872  add_partial_profiles(Profile self, std::vector< IMP::saxs::Profile *,std::allocator< IMP::saxs::Profile * > > const & profiles)
873  """
874  return _IMP_saxs.Profile_add_partial_profiles(self, *args)
875 
876  def background_adjust(self, *args):
877  """background_adjust(Profile self, double start_q)"""
878  return _IMP_saxs.Profile_background_adjust(self, *args)
879 
880  def scale(self, *args):
881  """scale(Profile self, IMP::Float c)"""
882  return _IMP_saxs.Profile_scale(self, *args)
883 
884  def offset(self, *args):
885  """offset(Profile self, IMP::Float c)"""
886  return _IMP_saxs.Profile_offset(self, *args)
887 
888  def copy_errors(self, *args):
889  """copy_errors(Profile self, Profile exp_profile)"""
890  return _IMP_saxs.Profile_copy_errors(self, *args)
891 
892  def get_version_info(self):
893  """get_version_info(Profile self) -> VersionInfo"""
894  return _IMP_saxs.Profile_get_version_info(self)
895 
896  def __str__(self):
897  """__str__(Profile self) -> std::string"""
898  return _IMP_saxs.Profile___str__(self)
899 
900  def __repr__(self):
901  """__repr__(Profile self) -> std::string"""
902  return _IMP_saxs.Profile___repr__(self)
903 
904  def get_from(o):
905  return _object_cast_to_Profile(o)
906  get_from = staticmethod(get_from)
907 
908 Profile_swigregister = _IMP_saxs.Profile_swigregister
909 Profile_swigregister(Profile)
910 Profile.modulation_function_parameter_ = _IMP_saxs.cvar.Profile_modulation_function_parameter_
911 
912 class FitParameters(_object):
913  """Proxy of C++ IMP::saxs::FitParameters class"""
914  __swig_setmethods__ = {}
915  __setattr__ = lambda self, name, value: _swig_setattr(self, FitParameters, name, value)
916  __swig_getmethods__ = {}
917  __getattr__ = lambda self, name: _swig_getattr(self, FitParameters, name)
918  __repr__ = _swig_repr
919  def __init__(self, *args):
920  """
921  __init__(IMP::saxs::FitParameters self) -> FitParameters
922  __init__(IMP::saxs::FitParameters self, float chi, float c1, float c2, float c, float o) -> FitParameters
923  __init__(IMP::saxs::FitParameters self, float chi, float c1, float c2) -> FitParameters
924  """
925  this = _IMP_saxs.new_FitParameters(*args)
926  try: self.this.append(this)
927  except: self.this = this
928  def get_score(self):
929  """get_score(FitParameters self) -> float"""
930  return _IMP_saxs.FitParameters_get_score(self)
931 
932  def get_chi(self):
933  """get_chi(FitParameters self) -> float"""
934  return _IMP_saxs.FitParameters_get_chi(self)
935 
936  def get_c1(self):
937  """get_c1(FitParameters self) -> float"""
938  return _IMP_saxs.FitParameters_get_c1(self)
939 
940  def get_c2(self):
941  """get_c2(FitParameters self) -> float"""
942  return _IMP_saxs.FitParameters_get_c2(self)
943 
944  def get_scale(self):
945  """get_scale(FitParameters self) -> float"""
946  return _IMP_saxs.FitParameters_get_scale(self)
947 
948  def get_offset(self):
949  """get_offset(FitParameters self) -> float"""
950  return _IMP_saxs.FitParameters_get_offset(self)
951 
952  def get_default_chi(self):
953  """get_default_chi(FitParameters self) -> float"""
954  return _IMP_saxs.FitParameters_get_default_chi(self)
955 
956  def get_pdb_file_name(self):
957  """get_pdb_file_name(FitParameters self) -> std::string"""
958  return _IMP_saxs.FitParameters_get_pdb_file_name(self)
959 
960  def get_profile_file_name(self):
961  """get_profile_file_name(FitParameters self) -> std::string"""
962  return _IMP_saxs.FitParameters_get_profile_file_name(self)
963 
964  def get_mol_index(self):
965  """get_mol_index(FitParameters self) -> int"""
966  return _IMP_saxs.FitParameters_get_mol_index(self)
967 
968  def set_chi(self, *args):
969  """set_chi(FitParameters self, float chi)"""
970  return _IMP_saxs.FitParameters_set_chi(self, *args)
971 
972  def set_default_chi(self, *args):
973  """set_default_chi(FitParameters self, float chi)"""
974  return _IMP_saxs.FitParameters_set_default_chi(self, *args)
975 
976  def set_profile_file_name(self, *args):
977  """set_profile_file_name(FitParameters self, std::string file_name)"""
978  return _IMP_saxs.FitParameters_set_profile_file_name(self, *args)
979 
980  def set_pdb_file_name(self, *args):
981  """set_pdb_file_name(FitParameters self, std::string file_name)"""
982  return _IMP_saxs.FitParameters_set_pdb_file_name(self, *args)
983 
984  def set_mol_index(self, *args):
985  """set_mol_index(FitParameters self, int index)"""
986  return _IMP_saxs.FitParameters_set_mol_index(self, *args)
987 
988  def show(self, *args):
989  """show(FitParameters self, _ostream s)"""
990  return _IMP_saxs.FitParameters_show(self, *args)
991 
992  __swig_destroy__ = _IMP_saxs.delete_FitParameters
993  __del__ = lambda self : None;
994 FitParameters_swigregister = _IMP_saxs.FitParameters_swigregister
995 FitParameters_swigregister(FitParameters)
996 
997 class WeightedFitParameters(FitParameters):
998  """Proxy of C++ IMP::saxs::WeightedFitParameters class"""
999  __swig_setmethods__ = {}
1000  for _s in [FitParameters]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
1001  __setattr__ = lambda self, name, value: _swig_setattr(self, WeightedFitParameters, name, value)
1002  __swig_getmethods__ = {}
1003  for _s in [FitParameters]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
1004  __getattr__ = lambda self, name: _swig_getattr(self, WeightedFitParameters, name)
1005  __repr__ = _swig_repr
1006  def __init__(self, *args):
1007  """__init__(IMP::saxs::WeightedFitParameters self, float chi, float c1, float c2, IMP::Floats weights) -> WeightedFitParameters"""
1008  this = _IMP_saxs.new_WeightedFitParameters(*args)
1009  try: self.this.append(this)
1010  except: self.this = this
1011  def get_weights(self):
1012  """get_weights(WeightedFitParameters self) -> IMP::Floats const &"""
1013  return _IMP_saxs.WeightedFitParameters_get_weights(self)
1014 
1015  def show(self, *args):
1016  """show(WeightedFitParameters self, _ostream s)"""
1017  return _IMP_saxs.WeightedFitParameters_show(self, *args)
1018 
1019  __swig_destroy__ = _IMP_saxs.delete_WeightedFitParameters
1020  __del__ = lambda self : None;
1021 WeightedFitParameters_swigregister = _IMP_saxs.WeightedFitParameters_swigregister
1022 WeightedFitParameters_swigregister(WeightedFitParameters)
1023 
1024 class ChiScore(_object):
1025  """Proxy of C++ IMP::saxs::ChiScore class"""
1026  __swig_setmethods__ = {}
1027  __setattr__ = lambda self, name, value: _swig_setattr(self, ChiScore, name, value)
1028  __swig_getmethods__ = {}
1029  __getattr__ = lambda self, name: _swig_getattr(self, ChiScore, name)
1030  __repr__ = _swig_repr
1031  def compute_score(self, *args):
1032  """
1033  compute_score(ChiScore self, Profile exp_profile, Profile model_profile, bool use_offset=False) -> IMP::Float
1034  compute_score(ChiScore self, Profile exp_profile, Profile model_profile) -> IMP::Float
1035  compute_score(ChiScore self, Profile exp_profile, Profile model_profile, IMP::Float min_q, IMP::Float max_q) -> IMP::Float
1036  """
1037  return _IMP_saxs.ChiScore_compute_score(self, *args)
1038 
1039  def compute_scale_factor(self, *args):
1040  """
1041  compute_scale_factor(ChiScore self, Profile exp_profile, Profile model_profile, IMP::Float offset=0.0) -> IMP::Float
1042  compute_scale_factor(ChiScore self, Profile exp_profile, Profile model_profile) -> IMP::Float
1043  """
1044  return _IMP_saxs.ChiScore_compute_scale_factor(self, *args)
1045 
1046  def compute_offset(self, *args):
1047  """compute_offset(ChiScore self, Profile exp_profile, Profile model_profile) -> IMP::Float"""
1048  return _IMP_saxs.ChiScore_compute_offset(self, *args)
1049 
1050  def __init__(self):
1051  """__init__(IMP::saxs::ChiScore self) -> ChiScore"""
1052  this = _IMP_saxs.new_ChiScore()
1053  try: self.this.append(this)
1054  except: self.this = this
1055  __swig_destroy__ = _IMP_saxs.delete_ChiScore
1056  __del__ = lambda self : None;
1057 ChiScore_swigregister = _IMP_saxs.ChiScore_swigregister
1058 ChiScore_swigregister(ChiScore)
1059 
1060 class ChiScoreLog(_object):
1061  """Proxy of C++ IMP::saxs::ChiScoreLog class"""
1062  __swig_setmethods__ = {}
1063  __setattr__ = lambda self, name, value: _swig_setattr(self, ChiScoreLog, name, value)
1064  __swig_getmethods__ = {}
1065  __getattr__ = lambda self, name: _swig_getattr(self, ChiScoreLog, name)
1066  __repr__ = _swig_repr
1067  def compute_score(self, *args):
1068  """
1069  compute_score(ChiScoreLog self, Profile exp_profile, Profile model_profile, bool use_offset=False) -> IMP::Float
1070  compute_score(ChiScoreLog self, Profile exp_profile, Profile model_profile) -> IMP::Float
1071  compute_score(ChiScoreLog self, Profile exp_profile, Profile model_profile, IMP::Float min_q, IMP::Float max_q) -> IMP::Float
1072  """
1073  return _IMP_saxs.ChiScoreLog_compute_score(self, *args)
1074 
1075  def compute_scale_factor(self, *args):
1076  """
1077  compute_scale_factor(ChiScoreLog self, Profile exp_profile, Profile model_profile, IMP::Float offset=0.0) -> IMP::Float
1078  compute_scale_factor(ChiScoreLog self, Profile exp_profile, Profile model_profile) -> IMP::Float
1079  """
1080  return _IMP_saxs.ChiScoreLog_compute_scale_factor(self, *args)
1081 
1082  def compute_offset(self, *args):
1083  """compute_offset(ChiScoreLog self, Profile exp_profile, Profile model_profile) -> IMP::Float"""
1084  return _IMP_saxs.ChiScoreLog_compute_offset(self, *args)
1085 
1086  def __init__(self):
1087  """__init__(IMP::saxs::ChiScoreLog self) -> ChiScoreLog"""
1088  this = _IMP_saxs.new_ChiScoreLog()
1089  try: self.this.append(this)
1090  except: self.this = this
1091  __swig_destroy__ = _IMP_saxs.delete_ChiScoreLog
1092  __del__ = lambda self : None;
1093 ChiScoreLog_swigregister = _IMP_saxs.ChiScoreLog_swigregister
1094 ChiScoreLog_swigregister(ChiScoreLog)
1095 
1096 class ProfileFitterChi(IMP.base.Object):
1097  """Proxy of C++ IMP::saxs::ProfileFitter<(IMP::saxs::ChiScore)> class"""
1098  __swig_setmethods__ = {}
1099  for _s in [IMP.base.Object]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
1100  __setattr__ = lambda self, name, value: _swig_setattr(self, ProfileFitterChi, name, value)
1101  __swig_getmethods__ = {}
1102  for _s in [IMP.base.Object]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
1103  __getattr__ = lambda self, name: _swig_getattr(self, ProfileFitterChi, name)
1104  __repr__ = _swig_repr
1105  def __init__(self, *args):
1106  """
1107  __init__(IMP::saxs::ProfileFitter<(IMP::saxs::ChiScore)> self, Profile exp_profile) -> ProfileFitterChi
1108  __init__(IMP::saxs::ProfileFitter<(IMP::saxs::ChiScore)> self, Profile exp_profile, ChiScore sf) -> ProfileFitterChi
1109  """
1110  this = _IMP_saxs.new_ProfileFitterChi(*args)
1111  try: self.this.append(this)
1112  except: self.this = this
1113  def compute_score(self, *args):
1114  """
1115  compute_score(ProfileFitterChi self, Profile model_profile, bool use_offset=False, std::string const fit_file_name="") -> IMP::Float
1116  compute_score(ProfileFitterChi self, Profile model_profile, bool use_offset=False) -> IMP::Float
1117  compute_score(ProfileFitterChi self, Profile model_profile) -> IMP::Float
1118  compute_score(ProfileFitterChi self, Profile model_profile, IMP::Float min_q, IMP::Float max_q) -> IMP::Float
1119  """
1120  return _IMP_saxs.ProfileFitterChi_compute_score(self, *args)
1121 
1122  def fit_profile(self, *args):
1123  """
1124  fit_profile(ProfileFitterChi self, Profile partial_profile, float min_c1=0.95, float max_c1=1.05, float min_c2=-2.0,
1125  float max_c2=4.0, bool use_offset=False, std::string const fit_file_name="") -> FitParameters
1126  fit_profile(ProfileFitterChi self, Profile partial_profile, float min_c1=0.95, float max_c1=1.05, float min_c2=-2.0,
1127  float max_c2=4.0, bool use_offset=False) -> FitParameters
1128  fit_profile(ProfileFitterChi self, Profile partial_profile, float min_c1=0.95, float max_c1=1.05, float min_c2=-2.0,
1129  float max_c2=4.0) -> FitParameters
1130  fit_profile(ProfileFitterChi self, Profile partial_profile, float min_c1=0.95, float max_c1=1.05, float min_c2=-2.0) -> FitParameters
1131  fit_profile(ProfileFitterChi self, Profile partial_profile, float min_c1=0.95, float max_c1=1.05) -> FitParameters
1132  fit_profile(ProfileFitterChi self, Profile partial_profile, float min_c1=0.95) -> FitParameters
1133  fit_profile(ProfileFitterChi self, Profile partial_profile) -> FitParameters
1134  """
1135  return _IMP_saxs.ProfileFitterChi_fit_profile(self, *args)
1136 
1137  def compute_scale_factor(self, *args):
1138  """
1139  compute_scale_factor(ProfileFitterChi self, Profile model_profile, IMP::Float offset=0.0) -> IMP::Float
1140  compute_scale_factor(ProfileFitterChi self, Profile model_profile) -> IMP::Float
1141  """
1142  return _IMP_saxs.ProfileFitterChi_compute_scale_factor(self, *args)
1143 
1144  def compute_offset(self, *args):
1145  """compute_offset(ProfileFitterChi self, Profile model_profile) -> IMP::Float"""
1146  return _IMP_saxs.ProfileFitterChi_compute_offset(self, *args)
1147 
1148  def resample(self, *args):
1149  """resample(ProfileFitterChi self, Profile model_profile, Profile resampled_profile)"""
1150  return _IMP_saxs.ProfileFitterChi_resample(self, *args)
1151 
1152  def write_SAXS_fit_file(self, *args):
1153  """
1154  write_SAXS_fit_file(ProfileFitterChi self, std::string const & file_name, Profile model_profile, IMP::Float const chi_square,
1155  IMP::Float const c=1, IMP::Float const offset=0)
1156  write_SAXS_fit_file(ProfileFitterChi self, std::string const & file_name, Profile model_profile, IMP::Float const chi_square,
1157  IMP::Float const c=1)
1158  write_SAXS_fit_file(ProfileFitterChi self, std::string const & file_name, Profile model_profile, IMP::Float const chi_square)
1159  """
1160  return _IMP_saxs.ProfileFitterChi_write_SAXS_fit_file(self, *args)
1161 
1162  __swig_destroy__ = _IMP_saxs.delete_ProfileFitterChi
1163  __del__ = lambda self : None;
1164 ProfileFitterChi_swigregister = _IMP_saxs.ProfileFitterChi_swigregister
1165 ProfileFitterChi_swigregister(ProfileFitterChi)
1166 
1167 class WeightedProfileFitter(ProfileFitterChi):
1168  """Proxy of C++ IMP::saxs::WeightedProfileFitter class"""
1169  __swig_setmethods__ = {}
1170  for _s in [ProfileFitterChi]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
1171  __setattr__ = lambda self, name, value: _swig_setattr(self, WeightedProfileFitter, name, value)
1172  __swig_getmethods__ = {}
1173  for _s in [ProfileFitterChi]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
1174  __getattr__ = lambda self, name: _swig_getattr(self, WeightedProfileFitter, name)
1175  __repr__ = _swig_repr
1176  def __init__(self, *args):
1177  """__init__(IMP::saxs::WeightedProfileFitter self, Profile exp_profile) -> WeightedProfileFitter"""
1178  this = _IMP_saxs.new_WeightedProfileFitter(*args)
1179  try: self.this.append(this)
1180  except: self.this = this
1181  def compute_score(self, *args):
1182  """
1183  compute_score(WeightedProfileFitter self, IMP::saxs::ProfilesTemp const & profiles, DistBase weights, bool NNLS=True) -> IMP::Float
1184  compute_score(WeightedProfileFitter self, IMP::saxs::ProfilesTemp const & profiles, DistBase weights) -> IMP::Float
1185  """
1186  return _IMP_saxs.WeightedProfileFitter_compute_score(self, *args)
1187 
1188  def fit_profile(self, *args):
1189  """
1190  fit_profile(WeightedProfileFitter self, IMP::saxs::ProfilesTemp partial_profiles, float min_c1=0.95, float max_c1=1.05, float min_c2=-2.0,
1191  float max_c2=4.0) -> WeightedFitParameters
1192  fit_profile(WeightedProfileFitter self, IMP::saxs::ProfilesTemp partial_profiles, float min_c1=0.95, float max_c1=1.05, float min_c2=-2.0) -> WeightedFitParameters
1193  fit_profile(WeightedProfileFitter self, IMP::saxs::ProfilesTemp partial_profiles, float min_c1=0.95, float max_c1=1.05) -> WeightedFitParameters
1194  fit_profile(WeightedProfileFitter self, IMP::saxs::ProfilesTemp partial_profiles, float min_c1=0.95) -> WeightedFitParameters
1195  fit_profile(WeightedProfileFitter self, IMP::saxs::ProfilesTemp partial_profiles) -> WeightedFitParameters
1196  """
1197  return _IMP_saxs.WeightedProfileFitter_fit_profile(self, *args)
1198 
1199  def write_fit_file(self, *args):
1200  """write_fit_file(WeightedProfileFitter self, IMP::saxs::ProfilesTemp partial_profiles, WeightedFitParameters fp, std::string const fit_file_name)"""
1201  return _IMP_saxs.WeightedProfileFitter_write_fit_file(self, *args)
1202 
1203  __swig_destroy__ = _IMP_saxs.delete_WeightedProfileFitter
1204  __del__ = lambda self : None;
1205 WeightedProfileFitter_swigregister = _IMP_saxs.WeightedProfileFitter_swigregister
1206 WeightedProfileFitter_swigregister(WeightedProfileFitter)
1207 
1208 class DerivativeCalculator(IMP.base.Object):
1209  """Proxy of C++ IMP::saxs::DerivativeCalculator class"""
1210  __swig_setmethods__ = {}
1211  for _s in [IMP.base.Object]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
1212  __setattr__ = lambda self, name, value: _swig_setattr(self, DerivativeCalculator, name, value)
1213  __swig_getmethods__ = {}
1214  for _s in [IMP.base.Object]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
1215  __getattr__ = lambda self, name: _swig_getattr(self, DerivativeCalculator, name)
1216  __repr__ = _swig_repr
1217  def __init__(self, *args):
1218  """__init__(IMP::saxs::DerivativeCalculator self, Profile exp_profile) -> DerivativeCalculator"""
1219  this = _IMP_saxs.new_DerivativeCalculator(*args)
1220  try: self.this.append(this)
1221  except: self.this = this
1222  def compute_chisquare_derivative(self, *args):
1223  """
1224  compute_chisquare_derivative(DerivativeCalculator self, Profile model_profile, IMP::kernel::Particles const & particles1, IMP::kernel::Particles const & particles2,
1225  std::vector< IMP::algebra::Vector3D,std::allocator< IMP::algebra::Vector3D > > & derivatives,
1226  DistBase effect_size)
1227  compute_chisquare_derivative(DerivativeCalculator self, Profile model_profile, IMP::kernel::Particles const & particles, std::vector< IMP::algebra::Vector3D,std::allocator< IMP::algebra::Vector3D > > & derivatives,
1228  DistBase effect_size)
1229  """
1230  return _IMP_saxs.DerivativeCalculator_compute_chisquare_derivative(self, *args)
1231 
1232  def compute_gaussian_effect_size(self, *args):
1233  """compute_gaussian_effect_size(DerivativeCalculator self, Profile model_profile, IMP::Float const c, IMP::Float const offset, DistBase effect_size)"""
1234  return _IMP_saxs.DerivativeCalculator_compute_gaussian_effect_size(self, *args)
1235 
1236  __swig_destroy__ = _IMP_saxs.delete_DerivativeCalculator
1237  __del__ = lambda self : None;
1238 DerivativeCalculator_swigregister = _IMP_saxs.DerivativeCalculator_swigregister
1239 DerivativeCalculator_swigregister(DerivativeCalculator)
1240 
1242  """Proxy of C++ IMP::saxs::Restraint class"""
1243  __swig_setmethods__ = {}
1244  for _s in [IMP.kernel.Restraint]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
1245  __setattr__ = lambda self, name, value: _swig_setattr(self, Restraint, name, value)
1246  __swig_getmethods__ = {}
1247  for _s in [IMP.kernel.Restraint]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
1248  __getattr__ = lambda self, name: _swig_getattr(self, Restraint, name)
1249  __repr__ = _swig_repr
1250  def __init__(self, *args):
1251  """
1252  __init__(IMP::saxs::Restraint self, IMP::kernel::Particles const & particles, Profile exp_profile, IMP::saxs::FormFactorType ff_type=HEAVY_ATOMS) -> Restraint
1253  __init__(IMP::saxs::Restraint self, IMP::kernel::Particles const & particles, Profile exp_profile) -> Restraint
1254  """
1255  this = _IMP_saxs.new_Restraint(*args)
1256  try: self.this.append(this)
1257  except: self.this = this
1258  if self.__class__ != Restraint:
1259  import IMP.base
1260  IMP.base._director_objects.register(self)
1261 
1262 
1263 
1264  def do_get_inputs(self):
1265  """do_get_inputs(Restraint self) -> IMP::kernel::ModelObjectsTemp"""
1266  return _IMP_saxs.Restraint_do_get_inputs(self)
1267 
1268  def get_version_info(self):
1269  """get_version_info(Restraint self) -> VersionInfo"""
1270  return _IMP_saxs.Restraint_get_version_info(self)
1271 
1272 Restraint_swigregister = _IMP_saxs.Restraint_swigregister
1273 Restraint_swigregister(Restraint)
1274 
1275 class RadiusOfGyrationRestraint(IMP.kernel.Restraint):
1276  """Proxy of C++ IMP::saxs::RadiusOfGyrationRestraint class"""
1277  __swig_setmethods__ = {}
1278  for _s in [IMP.kernel.Restraint]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
1279  __setattr__ = lambda self, name, value: _swig_setattr(self, RadiusOfGyrationRestraint, name, value)
1280  __swig_getmethods__ = {}
1281  for _s in [IMP.kernel.Restraint]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
1282  __getattr__ = lambda self, name: _swig_getattr(self, RadiusOfGyrationRestraint, name)
1283  __repr__ = _swig_repr
1284  def __init__(self, *args):
1285  """
1286  __init__(IMP::saxs::RadiusOfGyrationRestraint self, IMP::kernel::Particles const & particles, Profile exp_profile, double const end_q_rg=1.3) -> RadiusOfGyrationRestraint
1287  __init__(IMP::saxs::RadiusOfGyrationRestraint self, IMP::kernel::Particles const & particles, Profile exp_profile) -> RadiusOfGyrationRestraint
1288  """
1289  this = _IMP_saxs.new_RadiusOfGyrationRestraint(*args)
1290  try: self.this.append(this)
1291  except: self.this = this
1292  def do_get_inputs(self):
1293  """do_get_inputs(RadiusOfGyrationRestraint self) -> IMP::kernel::ModelObjectsTemp"""
1294  return _IMP_saxs.RadiusOfGyrationRestraint_do_get_inputs(self)
1295 
1296  def get_version_info(self):
1297  """get_version_info(RadiusOfGyrationRestraint self) -> VersionInfo"""
1298  return _IMP_saxs.RadiusOfGyrationRestraint_get_version_info(self)
1299 
1300 RadiusOfGyrationRestraint_swigregister = _IMP_saxs.RadiusOfGyrationRestraint_swigregister
1301 RadiusOfGyrationRestraint_swigregister(RadiusOfGyrationRestraint)
1302 
1303 class FloatDistribution(DistBase):
1304  """Proxy of C++ IMP::saxs::Distribution<(IMP::Float)> class"""
1305  __swig_setmethods__ = {}
1306  for _s in [DistBase]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
1307  __setattr__ = lambda self, name, value: _swig_setattr(self, FloatDistribution, name, value)
1308  __swig_getmethods__ = {}
1309  for _s in [DistBase]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
1310  __getattr__ = lambda self, name: _swig_getattr(self, FloatDistribution, name)
1311  __repr__ = _swig_repr
1312  def __init__(self, *args):
1313  """
1314  __init__(IMP::saxs::Distribution<(IMP::Float)> self, IMP::Float bin_size=pr_resolution) -> FloatDistribution
1315  __init__(IMP::saxs::Distribution<(IMP::Float)> self) -> FloatDistribution
1316  """
1317  this = _IMP_saxs.new_FloatDistribution(*args)
1318  try: self.this.append(this)
1319  except: self.this = this
1320  def get_max_distance(self):
1321  """get_max_distance(FloatDistribution self) -> IMP::Float"""
1322  return _IMP_saxs.FloatDistribution_get_max_distance(self)
1323 
1324  def get_bin_size(self):
1325  """get_bin_size(FloatDistribution self) -> IMP::Float"""
1326  return _IMP_saxs.FloatDistribution_get_bin_size(self)
1327 
1328  def get_index_from_distance(self, *args):
1329  """get_index_from_distance(FloatDistribution self, IMP::Float dist) -> unsigned int"""
1330  return _IMP_saxs.FloatDistribution_get_index_from_distance(self, *args)
1331 
1332  def get_distance_from_index(self, *args):
1333  """get_distance_from_index(FloatDistribution self, unsigned int index) -> IMP::Float"""
1334  return _IMP_saxs.FloatDistribution_get_distance_from_index(self, *args)
1335 
1336  __swig_destroy__ = _IMP_saxs.delete_FloatDistribution
1337  __del__ = lambda self : None;
1338 FloatDistribution_swigregister = _IMP_saxs.FloatDistribution_swigregister
1339 FloatDistribution_swigregister(FloatDistribution)
1340 
1341 class VectorDistribution(_object):
1342  """Proxy of C++ IMP::saxs::Distribution<(IMP::algebra::Vector3D)> class"""
1343  __swig_setmethods__ = {}
1344  __setattr__ = lambda self, name, value: _swig_setattr(self, VectorDistribution, name, value)
1345  __swig_getmethods__ = {}
1346  __getattr__ = lambda self, name: _swig_getattr(self, VectorDistribution, name)
1347  __repr__ = _swig_repr
1348  def __init__(self, *args):
1349  """
1350  __init__(IMP::saxs::Distribution<(IMP::algebra::Vector3D)> self, IMP::Float bin_size=pr_resolution) -> VectorDistribution
1351  __init__(IMP::saxs::Distribution<(IMP::algebra::Vector3D)> self) -> VectorDistribution
1352  """
1353  this = _IMP_saxs.new_VectorDistribution(*args)
1354  try: self.this.append(this)
1355  except: self.this = this
1356  def get_max_distance(self):
1357  """get_max_distance(VectorDistribution self) -> IMP::Float"""
1358  return _IMP_saxs.VectorDistribution_get_max_distance(self)
1359 
1360  def get_bin_size(self):
1361  """get_bin_size(VectorDistribution self) -> IMP::Float"""
1362  return _IMP_saxs.VectorDistribution_get_bin_size(self)
1363 
1364  def get_index_from_distance(self, *args):
1365  """get_index_from_distance(VectorDistribution self, IMP::Float dist) -> unsigned int"""
1366  return _IMP_saxs.VectorDistribution_get_index_from_distance(self, *args)
1367 
1368  def get_distance_from_index(self, *args):
1369  """get_distance_from_index(VectorDistribution self, unsigned int index) -> IMP::Float"""
1370  return _IMP_saxs.VectorDistribution_get_distance_from_index(self, *args)
1371 
1372  __swig_destroy__ = _IMP_saxs.delete_VectorDistribution
1373  __del__ = lambda self : None;
1374 VectorDistribution_swigregister = _IMP_saxs.VectorDistribution_swigregister
1375 VectorDistribution_swigregister(VectorDistribution)
1376 
1377 class RadialDistributionFunction(FloatDistribution):
1378  """Proxy of C++ IMP::saxs::RadialDistributionFunction class"""
1379  __swig_setmethods__ = {}
1380  for _s in [FloatDistribution]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
1381  __setattr__ = lambda self, name, value: _swig_setattr(self, RadialDistributionFunction, name, value)
1382  __swig_getmethods__ = {}
1383  for _s in [FloatDistribution]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
1384  __getattr__ = lambda self, name: _swig_getattr(self, RadialDistributionFunction, name)
1385  __repr__ = _swig_repr
1386  def __init__(self, *args):
1387  """
1388  __init__(IMP::saxs::RadialDistributionFunction self, IMP::Float bin_size=pr_resolution) -> RadialDistributionFunction
1389  __init__(IMP::saxs::RadialDistributionFunction self) -> RadialDistributionFunction
1390  __init__(IMP::saxs::RadialDistributionFunction self, std::string const & file_name) -> RadialDistributionFunction
1391  """
1392  this = _IMP_saxs.new_RadialDistributionFunction(*args)
1393  try: self.this.append(this)
1394  except: self.this = this
1395  def scale(self, *args):
1396  """scale(RadialDistributionFunction self, IMP::Float c)"""
1397  return _IMP_saxs.RadialDistributionFunction_scale(self, *args)
1398 
1399  def add(self, *args):
1400  """add(RadialDistributionFunction self, RadialDistributionFunction model_pr)"""
1401  return _IMP_saxs.RadialDistributionFunction_add(self, *args)
1402 
1403  def show(self, *args):
1404  """
1405  show(RadialDistributionFunction self, _ostream out=std::cout)
1406  show(RadialDistributionFunction self)
1407  """
1408  return _IMP_saxs.RadialDistributionFunction_show(self, *args)
1409 
1410  def R_factor_score(self, *args):
1411  """
1412  R_factor_score(RadialDistributionFunction self, RadialDistributionFunction model_pr, std::string const & file_name="") -> IMP::Float
1413  R_factor_score(RadialDistributionFunction self, RadialDistributionFunction model_pr) -> IMP::Float
1414  """
1415  return _IMP_saxs.RadialDistributionFunction_R_factor_score(self, *args)
1416 
1417  def fit(self, *args):
1418  """
1419  fit(RadialDistributionFunction self, RadialDistributionFunction model_pr, std::string const & file_name="") -> IMP::Float
1420  fit(RadialDistributionFunction self, RadialDistributionFunction model_pr) -> IMP::Float
1421  """
1422  return _IMP_saxs.RadialDistributionFunction_fit(self, *args)
1423 
1424  def normalize(self):
1425  """normalize(RadialDistributionFunction self)"""
1426  return _IMP_saxs.RadialDistributionFunction_normalize(self)
1427 
1428  def add_to_distribution(self, *args):
1429  """add_to_distribution(RadialDistributionFunction self, IMP::Float dist, IMP::Float value)"""
1430  return _IMP_saxs.RadialDistributionFunction_add_to_distribution(self, *args)
1431 
1432  __swig_destroy__ = _IMP_saxs.delete_RadialDistributionFunction
1433  __del__ = lambda self : None;
1434 RadialDistributionFunction_swigregister = _IMP_saxs.RadialDistributionFunction_swigregister
1435 RadialDistributionFunction_swigregister(RadialDistributionFunction)
1436 
1437 class DeltaDistributionFunction(VectorDistribution):
1438  """Proxy of C++ IMP::saxs::DeltaDistributionFunction class"""
1439  __swig_setmethods__ = {}
1440  for _s in [VectorDistribution]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
1441  __setattr__ = lambda self, name, value: _swig_setattr(self, DeltaDistributionFunction, name, value)
1442  __swig_getmethods__ = {}
1443  for _s in [VectorDistribution]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
1444  __getattr__ = lambda self, name: _swig_getattr(self, DeltaDistributionFunction, name)
1445  __repr__ = _swig_repr
1446  def __init__(self, *args):
1447  """
1448  __init__(IMP::saxs::DeltaDistributionFunction self, IMP::kernel::Particles const & particles, IMP::Float max_distance=0.0, IMP::Float bin_size=pr_resolution) -> DeltaDistributionFunction
1449  __init__(IMP::saxs::DeltaDistributionFunction self, IMP::kernel::Particles const & particles, IMP::Float max_distance=0.0) -> DeltaDistributionFunction
1450  __init__(IMP::saxs::DeltaDistributionFunction self, IMP::kernel::Particles const & particles) -> DeltaDistributionFunction
1451  """
1452  this = _IMP_saxs.new_DeltaDistributionFunction(*args)
1453  try: self.this.append(this)
1454  except: self.this = this
1455  def calculate_derivative_distribution(self, *args):
1456  """calculate_derivative_distribution(DeltaDistributionFunction self, Particle particle)"""
1457  return _IMP_saxs.DeltaDistributionFunction_calculate_derivative_distribution(self, *args)
1458 
1459  def show(self, *args):
1460  """
1461  show(DeltaDistributionFunction self, _ostream out=std::cout, std::string prefix="")
1462  show(DeltaDistributionFunction self, _ostream out=std::cout)
1463  show(DeltaDistributionFunction self)
1464  """
1465  return _IMP_saxs.DeltaDistributionFunction_show(self, *args)
1466 
1467  __swig_destroy__ = _IMP_saxs.delete_DeltaDistributionFunction
1468  __del__ = lambda self : None;
1469 DeltaDistributionFunction_swigregister = _IMP_saxs.DeltaDistributionFunction_swigregister
1470 DeltaDistributionFunction_swigregister(DeltaDistributionFunction)
1471 
1472 class SolventAccessibleSurface(_object):
1473  """Proxy of C++ IMP::saxs::SolventAccessibleSurface class"""
1474  __swig_setmethods__ = {}
1475  __setattr__ = lambda self, name, value: _swig_setattr(self, SolventAccessibleSurface, name, value)
1476  __swig_getmethods__ = {}
1477  __getattr__ = lambda self, name: _swig_getattr(self, SolventAccessibleSurface, name)
1478  __repr__ = _swig_repr
1479  def get_solvent_accessibility(self, *args):
1480  """
1481  get_solvent_accessibility(SolventAccessibleSurface self, IMP::core::XYZRs const & points, float probe_radius=1.8, float density=5.0) -> IMP::Floats
1482  get_solvent_accessibility(SolventAccessibleSurface self, IMP::core::XYZRs const & points, float probe_radius=1.8) -> IMP::Floats
1483  get_solvent_accessibility(SolventAccessibleSurface self, IMP::core::XYZRs const & points) -> IMP::Floats
1484  """
1485  return _IMP_saxs.SolventAccessibleSurface_get_solvent_accessibility(self, *args)
1486 
1487  def __init__(self):
1488  """__init__(IMP::saxs::SolventAccessibleSurface self) -> SolventAccessibleSurface"""
1489  this = _IMP_saxs.new_SolventAccessibleSurface()
1490  try: self.this.append(this)
1491  except: self.this = this
1492  __swig_destroy__ = _IMP_saxs.delete_SolventAccessibleSurface
1493  __del__ = lambda self : None;
1494 SolventAccessibleSurface_swigregister = _IMP_saxs.SolventAccessibleSurface_swigregister
1495 SolventAccessibleSurface_swigregister(SolventAccessibleSurface)
1496 
1497 class ProfileFitterChiLog(IMP.base.Object):
1498  """Proxy of C++ IMP::saxs::ProfileFitter<(IMP::saxs::ChiScoreLog)> class"""
1499  __swig_setmethods__ = {}
1500  for _s in [IMP.base.Object]: __swig_setmethods__.update(getattr(_s,'__swig_setmethods__',{}))
1501  __setattr__ = lambda self, name, value: _swig_setattr(self, ProfileFitterChiLog, name, value)
1502  __swig_getmethods__ = {}
1503  for _s in [IMP.base.Object]: __swig_getmethods__.update(getattr(_s,'__swig_getmethods__',{}))
1504  __getattr__ = lambda self, name: _swig_getattr(self, ProfileFitterChiLog, name)
1505  __repr__ = _swig_repr
1506  def __init__(self, *args):
1507  """
1508  __init__(IMP::saxs::ProfileFitter<(IMP::saxs::ChiScoreLog)> self, Profile exp_profile) -> ProfileFitterChiLog
1509  __init__(IMP::saxs::ProfileFitter<(IMP::saxs::ChiScoreLog)> self, Profile exp_profile, ChiScoreLog sf) -> ProfileFitterChiLog
1510  """
1511  this = _IMP_saxs.new_ProfileFitterChiLog(*args)
1512  try: self.this.append(this)
1513  except: self.this = this
1514  def compute_score(self, *args):
1515  """
1516  compute_score(ProfileFitterChiLog self, Profile model_profile, bool use_offset=False, std::string const fit_file_name="") -> IMP::Float
1517  compute_score(ProfileFitterChiLog self, Profile model_profile, bool use_offset=False) -> IMP::Float
1518  compute_score(ProfileFitterChiLog self, Profile model_profile) -> IMP::Float
1519  compute_score(ProfileFitterChiLog self, Profile model_profile, IMP::Float min_q, IMP::Float max_q) -> IMP::Float
1520  """
1521  return _IMP_saxs.ProfileFitterChiLog_compute_score(self, *args)
1522 
1523  def fit_profile(self, *args):
1524  """
1525  fit_profile(ProfileFitterChiLog self, Profile partial_profile, float min_c1=0.95, float max_c1=1.05, float min_c2=-2.0,
1526  float max_c2=4.0, bool use_offset=False, std::string const fit_file_name="") -> FitParameters
1527  fit_profile(ProfileFitterChiLog self, Profile partial_profile, float min_c1=0.95, float max_c1=1.05, float min_c2=-2.0,
1528  float max_c2=4.0, bool use_offset=False) -> FitParameters
1529  fit_profile(ProfileFitterChiLog self, Profile partial_profile, float min_c1=0.95, float max_c1=1.05, float min_c2=-2.0,
1530  float max_c2=4.0) -> FitParameters
1531  fit_profile(ProfileFitterChiLog self, Profile partial_profile, float min_c1=0.95, float max_c1=1.05, float min_c2=-2.0) -> FitParameters
1532  fit_profile(ProfileFitterChiLog self, Profile partial_profile, float min_c1=0.95, float max_c1=1.05) -> FitParameters
1533  fit_profile(ProfileFitterChiLog self, Profile partial_profile, float min_c1=0.95) -> FitParameters
1534  fit_profile(ProfileFitterChiLog self, Profile partial_profile) -> FitParameters
1535  """
1536  return _IMP_saxs.ProfileFitterChiLog_fit_profile(self, *args)
1537 
1538  def compute_scale_factor(self, *args):
1539  """
1540  compute_scale_factor(ProfileFitterChiLog self, Profile model_profile, IMP::Float offset=0.0) -> IMP::Float
1541  compute_scale_factor(ProfileFitterChiLog self, Profile model_profile) -> IMP::Float
1542  """
1543  return _IMP_saxs.ProfileFitterChiLog_compute_scale_factor(self, *args)
1544 
1545  def compute_offset(self, *args):
1546  """compute_offset(ProfileFitterChiLog self, Profile model_profile) -> IMP::Float"""
1547  return _IMP_saxs.ProfileFitterChiLog_compute_offset(self, *args)
1548 
1549  def resample(self, *args):
1550  """resample(ProfileFitterChiLog self, Profile model_profile, Profile resampled_profile)"""
1551  return _IMP_saxs.ProfileFitterChiLog_resample(self, *args)
1552 
1553  def write_SAXS_fit_file(self, *args):
1554  """
1555  write_SAXS_fit_file(ProfileFitterChiLog self, std::string const & file_name, Profile model_profile, IMP::Float const chi_square,
1556  IMP::Float const c=1, IMP::Float const offset=0)
1557  write_SAXS_fit_file(ProfileFitterChiLog self, std::string const & file_name, Profile model_profile, IMP::Float const chi_square,
1558  IMP::Float const c=1)
1559  write_SAXS_fit_file(ProfileFitterChiLog self, std::string const & file_name, Profile model_profile, IMP::Float const chi_square)
1560  """
1561  return _IMP_saxs.ProfileFitterChiLog_write_SAXS_fit_file(self, *args)
1562 
1563  __swig_destroy__ = _IMP_saxs.delete_ProfileFitterChiLog
1564  __del__ = lambda self : None;
1565 ProfileFitterChiLog_swigregister = _IMP_saxs.ProfileFitterChiLog_swigregister
1566 ProfileFitterChiLog_swigregister(ProfileFitterChiLog)
1567 
1568 
1569 def get_module_version():
1570  """get_module_version() -> std::string const"""
1571  return _IMP_saxs.get_module_version()
1572 
1573 def get_example_path(*args):
1574  """get_example_path(std::string fname) -> std::string"""
1575  return _IMP_saxs.get_example_path(*args)
1576 
1577 def get_data_path(*args):
1578  """get_data_path(std::string fname) -> std::string"""
1579  return _IMP_saxs.get_data_path(*args)
1580 import _version_check
1581 _version_check.check_version(get_module_version())
1582 
1583 # This file is compatible with both classic and new-style classes.
1584 
1585 
FormFactorTable * default_form_factor_table()
std::string get_data_path(std::string file_name)
Return the full path to installed data.
See IMP.container for more information.
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
double get_volume(const BoundingBoxD< D > &bb)
Definition: BoundingBoxD.h:147
See IMP.kernel for more information.
std::string get_example_path(std::string file_name)
Return the path to installed example data for this module.
A restraint is a term in an IMP ScoringFunction.
Common base class for heavy weight IMP objects.
Definition: base/Object.h:106
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.
Float radius_of_gyration(const kernel::Particles &particles)
compute radius_of_gyration
Definition: saxs/utility.h:71
See IMP.display for more information.
Definition: ChimeraWriter.h:17
CheckLevel get_check_level()
Get the current audit mode.
See IMP.atom for more information.
IMP::kernel::Restraint Restraint