10 from __future__
import print_function, division, absolute_import
15 from sys
import version_info
as _swig_python_version_info
16 if _swig_python_version_info >= (2, 7, 0):
17 def swig_import_helper():
19 pkg = __name__.rpartition(
'.')[0]
20 mname =
'.'.join((pkg,
'_IMP_saxs')).lstrip(
'.')
22 return importlib.import_module(mname)
24 return importlib.import_module(
'_IMP_saxs')
25 _IMP_saxs = swig_import_helper()
26 del swig_import_helper
27 elif _swig_python_version_info >= (2, 6, 0):
28 def swig_import_helper():
29 from os.path
import dirname
33 fp, pathname, description = imp.find_module(
'_IMP_saxs', [dirname(__file__)])
39 _mod = imp.load_module(
'_IMP_saxs', fp, pathname, description)
43 _IMP_saxs = swig_import_helper()
44 del swig_import_helper
47 del _swig_python_version_info
49 _swig_property = property
54 import builtins
as __builtin__
58 def _swig_setattr_nondynamic(self, class_type, name, value, static=1):
59 if (name ==
"thisown"):
60 return self.this.own(value)
62 if type(value).__name__ ==
'SwigPyObject':
63 self.__dict__[name] = value
65 method = class_type.__swig_setmethods__.get(name,
None)
67 return method(self, value)
69 object.__setattr__(self, name, value)
71 raise AttributeError(
"You cannot add attributes to %s" % self)
74 def _swig_setattr(self, class_type, name, value):
75 return _swig_setattr_nondynamic(self, class_type, name, value, 0)
78 def _swig_getattr(self, class_type, name):
79 if (name ==
"thisown"):
80 return self.this.own()
81 method = class_type.__swig_getmethods__.get(name,
None)
84 raise AttributeError(
"'%s' object has no attribute '%s'" % (class_type.__name__, name))
89 strthis =
"proxy of " + self.this.__repr__()
90 except __builtin__.Exception:
92 return "<%s.%s; %s >" % (self.__class__.__module__, self.__class__.__name__, strthis,)
95 def _swig_setattr_nondynamic_method(set):
96 def set_attr(self, name, value):
97 if (name ==
"thisown"):
98 return self.this.own(value)
99 if hasattr(self, name)
or (name ==
"this"):
100 set(self, name, value)
102 raise AttributeError(
"You cannot add attributes to %s" % self)
108 weakref_proxy = weakref.proxy
109 except __builtin__.Exception:
110 weakref_proxy =
lambda x: x
113 class IMP_SAXS_SwigPyIterator(object):
114 """Proxy of C++ swig::IMP_SAXS_SwigPyIterator class."""
116 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
118 def __init__(self, *args, **kwargs):
119 raise AttributeError(
"No constructor defined - class is abstract")
120 __repr__ = _swig_repr
121 __swig_destroy__ = _IMP_saxs.delete_IMP_SAXS_SwigPyIterator
122 __del__ =
lambda self:
None
125 """value(IMP_SAXS_SwigPyIterator self) -> PyObject *"""
126 return _IMP_saxs.IMP_SAXS_SwigPyIterator_value(self)
131 incr(IMP_SAXS_SwigPyIterator self, size_t n=1) -> IMP_SAXS_SwigPyIterator
132 incr(IMP_SAXS_SwigPyIterator self) -> IMP_SAXS_SwigPyIterator
134 return _IMP_saxs.IMP_SAXS_SwigPyIterator_incr(self, n)
139 decr(IMP_SAXS_SwigPyIterator self, size_t n=1) -> IMP_SAXS_SwigPyIterator
140 decr(IMP_SAXS_SwigPyIterator self) -> IMP_SAXS_SwigPyIterator
142 return _IMP_saxs.IMP_SAXS_SwigPyIterator_decr(self, n)
145 def distance(self, x):
146 """distance(IMP_SAXS_SwigPyIterator self, IMP_SAXS_SwigPyIterator x) -> ptrdiff_t"""
147 return _IMP_saxs.IMP_SAXS_SwigPyIterator_distance(self, x)
151 """equal(IMP_SAXS_SwigPyIterator self, IMP_SAXS_SwigPyIterator x) -> bool"""
152 return _IMP_saxs.IMP_SAXS_SwigPyIterator_equal(self, x)
156 """copy(IMP_SAXS_SwigPyIterator self) -> IMP_SAXS_SwigPyIterator"""
157 return _IMP_saxs.IMP_SAXS_SwigPyIterator_copy(self)
161 """next(IMP_SAXS_SwigPyIterator self) -> PyObject *"""
162 return _IMP_saxs.IMP_SAXS_SwigPyIterator_next(self)
166 """__next__(IMP_SAXS_SwigPyIterator self) -> PyObject *"""
167 return _IMP_saxs.IMP_SAXS_SwigPyIterator___next__(self)
171 """previous(IMP_SAXS_SwigPyIterator self) -> PyObject *"""
172 return _IMP_saxs.IMP_SAXS_SwigPyIterator_previous(self)
175 def advance(self, n):
176 """advance(IMP_SAXS_SwigPyIterator self, ptrdiff_t n) -> IMP_SAXS_SwigPyIterator"""
177 return _IMP_saxs.IMP_SAXS_SwigPyIterator_advance(self, n)
181 """__eq__(IMP_SAXS_SwigPyIterator self, IMP_SAXS_SwigPyIterator x) -> bool"""
182 return _IMP_saxs.IMP_SAXS_SwigPyIterator___eq__(self, x)
186 """__ne__(IMP_SAXS_SwigPyIterator self, IMP_SAXS_SwigPyIterator x) -> bool"""
187 return _IMP_saxs.IMP_SAXS_SwigPyIterator___ne__(self, x)
190 def __iadd__(self, n):
191 """__iadd__(IMP_SAXS_SwigPyIterator self, ptrdiff_t n) -> IMP_SAXS_SwigPyIterator"""
192 return _IMP_saxs.IMP_SAXS_SwigPyIterator___iadd__(self, n)
195 def __isub__(self, n):
196 """__isub__(IMP_SAXS_SwigPyIterator self, ptrdiff_t n) -> IMP_SAXS_SwigPyIterator"""
197 return _IMP_saxs.IMP_SAXS_SwigPyIterator___isub__(self, n)
200 def __add__(self, n):
201 """__add__(IMP_SAXS_SwigPyIterator self, ptrdiff_t n) -> IMP_SAXS_SwigPyIterator"""
202 return _IMP_saxs.IMP_SAXS_SwigPyIterator___add__(self, n)
205 def __sub__(self, *args):
207 __sub__(IMP_SAXS_SwigPyIterator self, ptrdiff_t n) -> IMP_SAXS_SwigPyIterator
208 __sub__(IMP_SAXS_SwigPyIterator self, IMP_SAXS_SwigPyIterator x) -> ptrdiff_t
210 return _IMP_saxs.IMP_SAXS_SwigPyIterator___sub__(self, *args)
214 IMP_SAXS_SwigPyIterator_swigregister = _IMP_saxs.IMP_SAXS_SwigPyIterator_swigregister
215 IMP_SAXS_SwigPyIterator_swigregister(IMP_SAXS_SwigPyIterator)
223 IMP_DEBUG = _IMP_saxs.IMP_DEBUG
224 IMP_RELEASE = _IMP_saxs.IMP_RELEASE
225 IMP_SILENT = _IMP_saxs.IMP_SILENT
226 IMP_PROGRESS = _IMP_saxs.IMP_PROGRESS
227 IMP_TERSE = _IMP_saxs.IMP_TERSE
228 IMP_VERBOSE = _IMP_saxs.IMP_VERBOSE
229 IMP_MEMORY = _IMP_saxs.IMP_MEMORY
230 IMP_NONE = _IMP_saxs.IMP_NONE
231 IMP_USAGE = _IMP_saxs.IMP_USAGE
232 IMP_INTERNAL = _IMP_saxs.IMP_INTERNAL
233 IMP_KERNEL_HAS_LOG4CXX = _IMP_saxs.IMP_KERNEL_HAS_LOG4CXX
234 IMP_COMPILER_HAS_AUTO = _IMP_saxs.IMP_COMPILER_HAS_AUTO
235 IMP_COMPILER_HAS_DEBUG_VECTOR = _IMP_saxs.IMP_COMPILER_HAS_DEBUG_VECTOR
236 IMP_COMPILER_HAS_UNIQUE_PTR = _IMP_saxs.IMP_COMPILER_HAS_UNIQUE_PTR
237 IMP_KERNEL_HAS_BOOST_RANDOM = _IMP_saxs.IMP_KERNEL_HAS_BOOST_RANDOM
238 IMP_KERNEL_HAS_NUMPY = _IMP_saxs.IMP_KERNEL_HAS_NUMPY
239 IMP_KERNEL_HAS_GPERFTOOLS = _IMP_saxs.IMP_KERNEL_HAS_GPERFTOOLS
240 IMP_KERNEL_HAS_TCMALLOC_HEAPCHECKER = _IMP_saxs.IMP_KERNEL_HAS_TCMALLOC_HEAPCHECKER
241 IMP_KERNEL_HAS_TCMALLOC_HEAPPROFILER = _IMP_saxs.IMP_KERNEL_HAS_TCMALLOC_HEAPPROFILER
242 IMPKERNEL_SHOW_WARNINGS = _IMP_saxs.IMPKERNEL_SHOW_WARNINGS
245 class _DirectorObjects(object):
246 """@internal Simple class to keep references to director objects
247 to prevent premature deletion."""
250 def register(self, obj):
251 """Take a reference to a director object; will only work for
252 refcounted C++ classes"""
253 if hasattr(obj,
'get_ref_count'):
254 self._objects.append(obj)
256 """Only drop our reference and allow cleanup by Python if no other
257 Python references exist (we hold 3 references: one in self._objects,
258 one in x, and one in the argument list for getrefcount) *and* no
259 other C++ references exist (the Python object always holds one)"""
260 objs = [x
for x
in self._objects
if sys.getrefcount(x) > 3 \
261 or x.get_ref_count() > 1]
265 def get_object_count(self):
266 """Get number of director objects (useful for testing only)"""
267 return len(self._objects)
268 _director_objects = _DirectorObjects()
270 class _ostream(object):
271 """Proxy of C++ std::ostream class."""
273 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
275 def __init__(self, *args, **kwargs):
276 raise AttributeError(
"No constructor defined")
277 __repr__ = _swig_repr
279 def write(self, osa_buf):
280 """write(_ostream self, char const * osa_buf)"""
281 return _IMP_saxs._ostream_write(self, osa_buf)
283 _ostream_swigregister = _IMP_saxs._ostream_swigregister
284 _ostream_swigregister(_ostream)
286 IMP_COMPILER_HAS_OVERRIDE = _IMP_saxs.IMP_COMPILER_HAS_OVERRIDE
287 IMP_COMPILER_HAS_FINAL = _IMP_saxs.IMP_COMPILER_HAS_FINAL
288 IMP_HAS_NOEXCEPT = _IMP_saxs.IMP_HAS_NOEXCEPT
289 IMP_C_OPEN_BINARY = _IMP_saxs.IMP_C_OPEN_BINARY
291 IMP_CGAL_HAS_BOOST_FILESYSTEM = _IMP_saxs.IMP_CGAL_HAS_BOOST_FILESYSTEM
292 IMP_CGAL_HAS_BOOST_PROGRAMOPTIONS = _IMP_saxs.IMP_CGAL_HAS_BOOST_PROGRAMOPTIONS
293 IMP_CGAL_HAS_BOOST_RANDOM = _IMP_saxs.IMP_CGAL_HAS_BOOST_RANDOM
294 IMP_CGAL_HAS_BOOST_SYSTEM = _IMP_saxs.IMP_CGAL_HAS_BOOST_SYSTEM
295 IMP_CGAL_HAS_NUMPY = _IMP_saxs.IMP_CGAL_HAS_NUMPY
296 IMPCGAL_SHOW_WARNINGS = _IMP_saxs.IMPCGAL_SHOW_WARNINGS
298 IMP_ALGEBRA_HAS_IMP_CGAL = _IMP_saxs.IMP_ALGEBRA_HAS_IMP_CGAL
299 IMP_ALGEBRA_HAS_BOOST_FILESYSTEM = _IMP_saxs.IMP_ALGEBRA_HAS_BOOST_FILESYSTEM
300 IMP_ALGEBRA_HAS_BOOST_PROGRAMOPTIONS = _IMP_saxs.IMP_ALGEBRA_HAS_BOOST_PROGRAMOPTIONS
301 IMP_ALGEBRA_HAS_BOOST_RANDOM = _IMP_saxs.IMP_ALGEBRA_HAS_BOOST_RANDOM
302 IMP_ALGEBRA_HAS_BOOST_SYSTEM = _IMP_saxs.IMP_ALGEBRA_HAS_BOOST_SYSTEM
303 IMP_ALGEBRA_HAS_CGAL = _IMP_saxs.IMP_ALGEBRA_HAS_CGAL
304 IMP_ALGEBRA_HAS_NUMPY = _IMP_saxs.IMP_ALGEBRA_HAS_NUMPY
305 IMP_ALGEBRA_HAS_ANN = _IMP_saxs.IMP_ALGEBRA_HAS_ANN
306 IMPALGEBRA_SHOW_WARNINGS = _IMP_saxs.IMPALGEBRA_SHOW_WARNINGS
308 IMP_DISPLAY_HAS_IMP_CGAL = _IMP_saxs.IMP_DISPLAY_HAS_IMP_CGAL
309 IMP_DISPLAY_HAS_BOOST_FILESYSTEM = _IMP_saxs.IMP_DISPLAY_HAS_BOOST_FILESYSTEM
310 IMP_DISPLAY_HAS_BOOST_PROGRAMOPTIONS = _IMP_saxs.IMP_DISPLAY_HAS_BOOST_PROGRAMOPTIONS
311 IMP_DISPLAY_HAS_BOOST_RANDOM = _IMP_saxs.IMP_DISPLAY_HAS_BOOST_RANDOM
312 IMP_DISPLAY_HAS_BOOST_SYSTEM = _IMP_saxs.IMP_DISPLAY_HAS_BOOST_SYSTEM
313 IMP_DISPLAY_HAS_CGAL = _IMP_saxs.IMP_DISPLAY_HAS_CGAL
314 IMP_DISPLAY_HAS_NUMPY = _IMP_saxs.IMP_DISPLAY_HAS_NUMPY
315 IMPDISPLAY_SHOW_WARNINGS = _IMP_saxs.IMPDISPLAY_SHOW_WARNINGS
317 IMP_SCORE_FUNCTOR_HAS_IMP_CGAL = _IMP_saxs.IMP_SCORE_FUNCTOR_HAS_IMP_CGAL
318 IMP_SCORE_FUNCTOR_HAS_BOOST_FILESYSTEM = _IMP_saxs.IMP_SCORE_FUNCTOR_HAS_BOOST_FILESYSTEM
319 IMP_SCORE_FUNCTOR_HAS_BOOST_PROGRAMOPTIONS = _IMP_saxs.IMP_SCORE_FUNCTOR_HAS_BOOST_PROGRAMOPTIONS
320 IMP_SCORE_FUNCTOR_HAS_BOOST_RANDOM = _IMP_saxs.IMP_SCORE_FUNCTOR_HAS_BOOST_RANDOM
321 IMP_SCORE_FUNCTOR_HAS_BOOST_SYSTEM = _IMP_saxs.IMP_SCORE_FUNCTOR_HAS_BOOST_SYSTEM
322 IMP_SCORE_FUNCTOR_HAS_CGAL = _IMP_saxs.IMP_SCORE_FUNCTOR_HAS_CGAL
323 IMP_SCORE_FUNCTOR_HAS_HDF5 = _IMP_saxs.IMP_SCORE_FUNCTOR_HAS_HDF5
324 IMP_SCORE_FUNCTOR_HAS_NUMPY = _IMP_saxs.IMP_SCORE_FUNCTOR_HAS_NUMPY
325 IMPSCOREFUNCTOR_SHOW_WARNINGS = _IMP_saxs.IMPSCOREFUNCTOR_SHOW_WARNINGS
327 IMP_CORE_HAS_IMP_CGAL = _IMP_saxs.IMP_CORE_HAS_IMP_CGAL
328 IMP_CORE_HAS_IMP_KERNEL = _IMP_saxs.IMP_CORE_HAS_IMP_KERNEL
329 IMP_CORE_HAS_BOOST_FILESYSTEM = _IMP_saxs.IMP_CORE_HAS_BOOST_FILESYSTEM
330 IMP_CORE_HAS_BOOST_PROGRAMOPTIONS = _IMP_saxs.IMP_CORE_HAS_BOOST_PROGRAMOPTIONS
331 IMP_CORE_HAS_BOOST_RANDOM = _IMP_saxs.IMP_CORE_HAS_BOOST_RANDOM
332 IMP_CORE_HAS_BOOST_SYSTEM = _IMP_saxs.IMP_CORE_HAS_BOOST_SYSTEM
333 IMP_CORE_HAS_CGAL = _IMP_saxs.IMP_CORE_HAS_CGAL
334 IMP_CORE_HAS_HDF5 = _IMP_saxs.IMP_CORE_HAS_HDF5
335 IMP_CORE_HAS_NUMPY = _IMP_saxs.IMP_CORE_HAS_NUMPY
336 IMPCORE_SHOW_WARNINGS = _IMP_saxs.IMPCORE_SHOW_WARNINGS
338 IMP_CONTAINER_HAS_IMP_ALGEBRA = _IMP_saxs.IMP_CONTAINER_HAS_IMP_ALGEBRA
339 IMP_CONTAINER_HAS_IMP_CGAL = _IMP_saxs.IMP_CONTAINER_HAS_IMP_CGAL
340 IMP_CONTAINER_HAS_IMP_DISPLAY = _IMP_saxs.IMP_CONTAINER_HAS_IMP_DISPLAY
341 IMP_CONTAINER_HAS_IMP_KERNEL = _IMP_saxs.IMP_CONTAINER_HAS_IMP_KERNEL
342 IMP_CONTAINER_HAS_IMP_SCORE_FUNCTOR = _IMP_saxs.IMP_CONTAINER_HAS_IMP_SCORE_FUNCTOR
343 IMP_CONTAINER_HAS_BOOST_FILESYSTEM = _IMP_saxs.IMP_CONTAINER_HAS_BOOST_FILESYSTEM
344 IMP_CONTAINER_HAS_BOOST_PROGRAMOPTIONS = _IMP_saxs.IMP_CONTAINER_HAS_BOOST_PROGRAMOPTIONS
345 IMP_CONTAINER_HAS_BOOST_RANDOM = _IMP_saxs.IMP_CONTAINER_HAS_BOOST_RANDOM
346 IMP_CONTAINER_HAS_BOOST_SYSTEM = _IMP_saxs.IMP_CONTAINER_HAS_BOOST_SYSTEM
347 IMP_CONTAINER_HAS_CGAL = _IMP_saxs.IMP_CONTAINER_HAS_CGAL
348 IMP_CONTAINER_HAS_HDF5 = _IMP_saxs.IMP_CONTAINER_HAS_HDF5
349 IMP_CONTAINER_HAS_NUMPY = _IMP_saxs.IMP_CONTAINER_HAS_NUMPY
350 IMP_CONTAINER_HAS_PYTHON_IHM = _IMP_saxs.IMP_CONTAINER_HAS_PYTHON_IHM
351 IMP_CONTAINER_HAS_GOOGLE_DENSE_HASH_MAP = _IMP_saxs.IMP_CONTAINER_HAS_GOOGLE_DENSE_HASH_MAP
352 IMP_CONTAINER_HAS_ROBIN_MAP = _IMP_saxs.IMP_CONTAINER_HAS_ROBIN_MAP
353 IMPCONTAINER_SHOW_WARNINGS = _IMP_saxs.IMPCONTAINER_SHOW_WARNINGS
355 IMP_ATOM_HAS_IMP_CGAL = _IMP_saxs.IMP_ATOM_HAS_IMP_CGAL
356 IMP_ATOM_HAS_IMP_KERNEL = _IMP_saxs.IMP_ATOM_HAS_IMP_KERNEL
357 IMP_ATOM_HAS_IMP_SCORE_FUNCTOR = _IMP_saxs.IMP_ATOM_HAS_IMP_SCORE_FUNCTOR
358 IMP_ATOM_HAS_BOOST_PROGRAMOPTIONS = _IMP_saxs.IMP_ATOM_HAS_BOOST_PROGRAMOPTIONS
359 IMP_ATOM_HAS_BOOST_RANDOM = _IMP_saxs.IMP_ATOM_HAS_BOOST_RANDOM
360 IMP_ATOM_HAS_BOOST_REGEX = _IMP_saxs.IMP_ATOM_HAS_BOOST_REGEX
361 IMP_ATOM_HAS_BOOST_SYSTEM = _IMP_saxs.IMP_ATOM_HAS_BOOST_SYSTEM
362 IMP_ATOM_HAS_CGAL = _IMP_saxs.IMP_ATOM_HAS_CGAL
363 IMP_ATOM_HAS_HDF5 = _IMP_saxs.IMP_ATOM_HAS_HDF5
364 IMP_ATOM_HAS_NUMPY = _IMP_saxs.IMP_ATOM_HAS_NUMPY
365 IMP_ATOM_HAS_PYTHON_IHM = _IMP_saxs.IMP_ATOM_HAS_PYTHON_IHM
366 IMPATOM_SHOW_WARNINGS = _IMP_saxs.IMPATOM_SHOW_WARNINGS
367 IMP_ATOM_TYPE_INDEX = _IMP_saxs.IMP_ATOM_TYPE_INDEX
368 IMP_RESIDUE_TYPE_INDEX = _IMP_saxs.IMP_RESIDUE_TYPE_INDEX
369 IMP_HIERARCHY_TYPE_INDEX = _IMP_saxs.IMP_HIERARCHY_TYPE_INDEX
370 IMP_CHAIN_TYPE_INDEX = _IMP_saxs.IMP_CHAIN_TYPE_INDEX
372 IMP_SAXS_HAS_IMP_CGAL = _IMP_saxs.IMP_SAXS_HAS_IMP_CGAL
373 IMP_SAXS_HAS_IMP_CONTAINER = _IMP_saxs.IMP_SAXS_HAS_IMP_CONTAINER
374 IMP_SAXS_HAS_IMP_DISPLAY = _IMP_saxs.IMP_SAXS_HAS_IMP_DISPLAY
375 IMP_SAXS_HAS_IMP_KERNEL = _IMP_saxs.IMP_SAXS_HAS_IMP_KERNEL
376 IMP_SAXS_HAS_IMP_SCORE_FUNCTOR = _IMP_saxs.IMP_SAXS_HAS_IMP_SCORE_FUNCTOR
377 IMP_SAXS_HAS_BOOST_FILESYSTEM = _IMP_saxs.IMP_SAXS_HAS_BOOST_FILESYSTEM
378 IMP_SAXS_HAS_BOOST_PROGRAMOPTIONS = _IMP_saxs.IMP_SAXS_HAS_BOOST_PROGRAMOPTIONS
379 IMP_SAXS_HAS_BOOST_RANDOM = _IMP_saxs.IMP_SAXS_HAS_BOOST_RANDOM
380 IMP_SAXS_HAS_BOOST_REGEX = _IMP_saxs.IMP_SAXS_HAS_BOOST_REGEX
381 IMP_SAXS_HAS_BOOST_SYSTEM = _IMP_saxs.IMP_SAXS_HAS_BOOST_SYSTEM
382 IMP_SAXS_HAS_CGAL = _IMP_saxs.IMP_SAXS_HAS_CGAL
383 IMP_SAXS_HAS_HDF5 = _IMP_saxs.IMP_SAXS_HAS_HDF5
384 IMP_SAXS_HAS_NUMPY = _IMP_saxs.IMP_SAXS_HAS_NUMPY
385 IMP_SAXS_HAS_PYTHON_IHM = _IMP_saxs.IMP_SAXS_HAS_PYTHON_IHM
386 IMPSAXS_SHOW_WARNINGS = _IMP_saxs.IMPSAXS_SHOW_WARNINGS
387 class DistBase(object):
388 """Proxy of C++ std::vector<(double)> class."""
390 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
391 __repr__ = _swig_repr
394 """iterator(DistBase self) -> IMP_SAXS_SwigPyIterator"""
395 return _IMP_saxs.DistBase_iterator(self)
398 return self.iterator()
400 def __nonzero__(self):
401 """__nonzero__(DistBase self) -> bool"""
402 return _IMP_saxs.DistBase___nonzero__(self)
406 """__bool__(DistBase self) -> bool"""
407 return _IMP_saxs.DistBase___bool__(self)
411 """__len__(DistBase self) -> std::vector< double >::size_type"""
412 return _IMP_saxs.DistBase___len__(self)
415 def __getslice__(self, i, j):
416 """__getslice__(DistBase self, std::vector< double >::difference_type i, std::vector< double >::difference_type j) -> DistBase"""
417 return _IMP_saxs.DistBase___getslice__(self, i, j)
420 def __setslice__(self, *args):
422 __setslice__(DistBase self, std::vector< double >::difference_type i, std::vector< double >::difference_type j)
423 __setslice__(DistBase self, std::vector< double >::difference_type i, std::vector< double >::difference_type j, DistBase v)
425 return _IMP_saxs.DistBase___setslice__(self, *args)
428 def __delslice__(self, i, j):
429 """__delslice__(DistBase self, std::vector< double >::difference_type i, std::vector< double >::difference_type j)"""
430 return _IMP_saxs.DistBase___delslice__(self, i, j)
433 def __delitem__(self, *args):
435 __delitem__(DistBase self, std::vector< double >::difference_type i)
436 __delitem__(DistBase self, PySliceObject * slice)
438 return _IMP_saxs.DistBase___delitem__(self, *args)
441 def __getitem__(self, *args):
443 __getitem__(DistBase self, PySliceObject * slice) -> DistBase
444 __getitem__(DistBase self, std::vector< double >::difference_type i) -> std::vector< double >::value_type const &
446 return _IMP_saxs.DistBase___getitem__(self, *args)
449 def __setitem__(self, *args):
451 __setitem__(DistBase self, PySliceObject * slice, DistBase v)
452 __setitem__(DistBase self, PySliceObject * slice)
453 __setitem__(DistBase self, std::vector< double >::difference_type i, std::vector< double >::value_type const & x)
455 return _IMP_saxs.DistBase___setitem__(self, *args)
459 """pop(DistBase self) -> std::vector< double >::value_type"""
460 return _IMP_saxs.DistBase_pop(self)
464 """append(DistBase self, std::vector< double >::value_type const & x)"""
465 return _IMP_saxs.DistBase_append(self, x)
469 """empty(DistBase self) -> bool"""
470 return _IMP_saxs.DistBase_empty(self)
474 """size(DistBase self) -> std::vector< double >::size_type"""
475 return _IMP_saxs.DistBase_size(self)
479 """swap(DistBase self, DistBase v)"""
480 return _IMP_saxs.DistBase_swap(self, v)
484 """begin(DistBase self) -> std::vector< double >::iterator"""
485 return _IMP_saxs.DistBase_begin(self)
489 """end(DistBase self) -> std::vector< double >::iterator"""
490 return _IMP_saxs.DistBase_end(self)
494 """rbegin(DistBase self) -> std::vector< double >::reverse_iterator"""
495 return _IMP_saxs.DistBase_rbegin(self)
499 """rend(DistBase self) -> std::vector< double >::reverse_iterator"""
500 return _IMP_saxs.DistBase_rend(self)
504 """clear(DistBase self)"""
505 return _IMP_saxs.DistBase_clear(self)
508 def get_allocator(self):
509 """get_allocator(DistBase self) -> std::vector< double >::allocator_type"""
510 return _IMP_saxs.DistBase_get_allocator(self)
514 """pop_back(DistBase self)"""
515 return _IMP_saxs.DistBase_pop_back(self)
518 def erase(self, *args):
520 erase(DistBase self, std::vector< double >::iterator pos) -> std::vector< double >::iterator
521 erase(DistBase self, std::vector< double >::iterator first, std::vector< double >::iterator last) -> std::vector< double >::iterator
523 return _IMP_saxs.DistBase_erase(self, *args)
526 def __init__(self, *args):
528 __init__(std::vector<(double)> self) -> DistBase
529 __init__(std::vector<(double)> self, DistBase arg2) -> DistBase
530 __init__(std::vector<(double)> self, std::vector< double >::size_type size) -> DistBase
531 __init__(std::vector<(double)> self, std::vector< double >::size_type size, std::vector< double >::value_type const & value) -> DistBase
533 this = _IMP_saxs.new_DistBase(*args)
535 self.this.append(this)
536 except __builtin__.Exception:
539 def push_back(self, x):
540 """push_back(DistBase self, std::vector< double >::value_type const & x)"""
541 return _IMP_saxs.DistBase_push_back(self, x)
545 """front(DistBase self) -> std::vector< double >::value_type const &"""
546 return _IMP_saxs.DistBase_front(self)
550 """back(DistBase self) -> std::vector< double >::value_type const &"""
551 return _IMP_saxs.DistBase_back(self)
554 def assign(self, n, x):
555 """assign(DistBase self, std::vector< double >::size_type n, std::vector< double >::value_type const & x)"""
556 return _IMP_saxs.DistBase_assign(self, n, x)
559 def resize(self, *args):
561 resize(DistBase self, std::vector< double >::size_type new_size)
562 resize(DistBase self, std::vector< double >::size_type new_size, std::vector< double >::value_type const & x)
564 return _IMP_saxs.DistBase_resize(self, *args)
567 def insert(self, *args):
569 insert(DistBase self, std::vector< double >::iterator pos, std::vector< double >::value_type const & x) -> std::vector< double >::iterator
570 insert(DistBase self, std::vector< double >::iterator pos, std::vector< double >::size_type n, std::vector< double >::value_type const & x)
572 return _IMP_saxs.DistBase_insert(self, *args)
575 def reserve(self, n):
576 """reserve(DistBase self, std::vector< double >::size_type n)"""
577 return _IMP_saxs.DistBase_reserve(self, n)
581 """capacity(DistBase self) -> std::vector< double >::size_type"""
582 return _IMP_saxs.DistBase_capacity(self)
584 __swig_destroy__ = _IMP_saxs.delete_DistBase
585 __del__ =
lambda self:
None
586 DistBase_swigregister = _IMP_saxs.DistBase_swigregister
587 DistBase_swigregister(DistBase)
590 _object_types.append(
"Profile")
593 def _object_cast_to_Profile(o):
594 """_object_cast_to_Profile(Object o) -> Profile"""
595 return _IMP_saxs._object_cast_to_Profile(o)
597 _object_types.append(
"ChiScore")
600 def _object_cast_to_ChiScore(o):
601 """_object_cast_to_ChiScore(Object o) -> ChiScore"""
602 return _IMP_saxs._object_cast_to_ChiScore(o)
604 _object_types.append(
"ChiScoreLog")
607 def _object_cast_to_ChiScoreLog(o):
608 """_object_cast_to_ChiScoreLog(Object o) -> ChiScoreLog"""
609 return _IMP_saxs._object_cast_to_ChiScoreLog(o)
610 ALL_ATOMS = _IMP_saxs.ALL_ATOMS
611 HEAVY_ATOMS = _IMP_saxs.HEAVY_ATOMS
612 CA_ATOMS = _IMP_saxs.CA_ATOMS
613 RESIDUES = _IMP_saxs.RESIDUES
614 class FormFactorTable(object):
615 """Proxy of C++ IMP::saxs::FormFactorTable class."""
617 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
618 __repr__ = _swig_repr
620 def __init__(self, *args):
622 __init__(IMP::saxs::FormFactorTable self) -> FormFactorTable
623 __init__(IMP::saxs::FormFactorTable self, std::string const & table_name, double min_q, double max_q, double delta_q) -> FormFactorTable
625 this = _IMP_saxs.new_FormFactorTable(*args)
627 self.this.append(this)
628 except __builtin__.Exception:
631 def get_form_factor(self, *args):
633 get_form_factor(FormFactorTable self, Particle p, IMP::saxs::FormFactorType ff_type) -> double
634 get_form_factor(FormFactorTable self, Particle p) -> double
636 return _IMP_saxs.FormFactorTable_get_form_factor(self, *args)
639 def get_vacuum_form_factor(self, *args):
641 get_vacuum_form_factor(FormFactorTable self, Particle p, IMP::saxs::FormFactorType ff_type) -> double
642 get_vacuum_form_factor(FormFactorTable self, Particle p) -> double
644 return _IMP_saxs.FormFactorTable_get_vacuum_form_factor(self, *args)
647 def get_dummy_form_factor(self, *args):
649 get_dummy_form_factor(FormFactorTable self, Particle p, IMP::saxs::FormFactorType ff_type) -> double
650 get_dummy_form_factor(FormFactorTable self, Particle p) -> double
652 return _IMP_saxs.FormFactorTable_get_dummy_form_factor(self, *args)
655 def get_water_form_factor(self):
656 """get_water_form_factor(FormFactorTable self) -> double"""
657 return _IMP_saxs.FormFactorTable_get_water_form_factor(self)
660 def get_vacuum_water_form_factor(self):
661 """get_vacuum_water_form_factor(FormFactorTable self) -> double"""
662 return _IMP_saxs.FormFactorTable_get_vacuum_water_form_factor(self)
665 def get_dummy_water_form_factor(self):
666 """get_dummy_water_form_factor(FormFactorTable self) -> double"""
667 return _IMP_saxs.FormFactorTable_get_dummy_water_form_factor(self)
670 def get_form_factors(self, *args):
672 get_form_factors(FormFactorTable self, Particle p, IMP::saxs::FormFactorType ff_type) -> IMP::Vector< double > const
673 get_form_factors(FormFactorTable self, Particle p) -> IMP::Vector< double > const &
675 return _IMP_saxs.FormFactorTable_get_form_factors(self, *args)
678 def get_vacuum_form_factors(self, *args):
680 get_vacuum_form_factors(FormFactorTable self, Particle p, IMP::saxs::FormFactorType ff_type) -> IMP::Vector< double > const
681 get_vacuum_form_factors(FormFactorTable self, Particle p) -> IMP::Vector< double > const &
683 return _IMP_saxs.FormFactorTable_get_vacuum_form_factors(self, *args)
686 def get_dummy_form_factors(self, *args):
688 get_dummy_form_factors(FormFactorTable self, Particle p, IMP::saxs::FormFactorType ff_type) -> IMP::Vector< double > const
689 get_dummy_form_factors(FormFactorTable self, Particle p) -> IMP::Vector< double > const &
691 return _IMP_saxs.FormFactorTable_get_dummy_form_factors(self, *args)
694 def get_water_form_factors(self):
695 """get_water_form_factors(FormFactorTable self) -> IMP::Vector< double > const &"""
696 return _IMP_saxs.FormFactorTable_get_water_form_factors(self)
699 def get_water_vacuum_form_factors(self):
700 """get_water_vacuum_form_factors(FormFactorTable self) -> IMP::Vector< double > const &"""
701 return _IMP_saxs.FormFactorTable_get_water_vacuum_form_factors(self)
704 def get_water_dummy_form_factors(self):
705 """get_water_dummy_form_factors(FormFactorTable self) -> IMP::Vector< double > const &"""
706 return _IMP_saxs.FormFactorTable_get_water_dummy_form_factors(self)
709 def get_radius(self, *args):
711 get_radius(FormFactorTable self, Particle p, IMP::saxs::FormFactorType ff_type) -> double
712 get_radius(FormFactorTable self, Particle p) -> double
714 return _IMP_saxs.FormFactorTable_get_radius(self, *args)
719 get_volume(FormFactorTable self, Particle p, IMP::saxs::FormFactorType ff_type) -> double
720 get_volume(FormFactorTable self, Particle p) -> double
722 return _IMP_saxs.FormFactorTable_get_volume(self, *args)
725 def show(self, *args):
727 show(FormFactorTable self, _ostream out, std::string prefix)
728 show(FormFactorTable self, _ostream out)
729 show(FormFactorTable self)
731 return _IMP_saxs.FormFactorTable_show(self, *args)
733 rho_ = _swig_property(_IMP_saxs.FormFactorTable_rho__get, _IMP_saxs.FormFactorTable_rho__set)
734 __swig_destroy__ = _IMP_saxs.delete_FormFactorTable
735 __del__ =
lambda self:
None
736 FormFactorTable_swigregister = _IMP_saxs.FormFactorTable_swigregister
737 FormFactorTable_swigregister(FormFactorTable)
738 cvar = _IMP_saxs.cvar
742 """get_default_form_factor_table() -> FormFactorTable"""
743 return _IMP_saxs.get_default_form_factor_table()
745 """Proxy of C++ IMP::saxs::Profile class."""
747 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
749 def __init__(self, *args):
751 __init__(IMP::saxs::Profile self, std::string const & file_name, bool fit_file=False, double max_q=0.0, int units=1) -> Profile
752 __init__(IMP::saxs::Profile self, std::string const & file_name, bool fit_file=False, double max_q=0.0) -> Profile
753 __init__(IMP::saxs::Profile self, std::string const & file_name, bool fit_file=False) -> Profile
754 __init__(IMP::saxs::Profile self, std::string const & file_name) -> Profile
755 __init__(IMP::saxs::Profile self, double qmin=0.0, double qmax=0.5, double delta=0.005) -> Profile
756 __init__(IMP::saxs::Profile self, double qmin=0.0, double qmax=0.5) -> Profile
757 __init__(IMP::saxs::Profile self, double qmin=0.0) -> Profile
758 __init__(IMP::saxs::Profile self) -> Profile
760 this = _IMP_saxs.new_Profile(*args)
762 self.this.append(this)
763 except __builtin__.Exception:
766 def calculate_profile_partial(self, *args):
768 calculate_profile_partial(Profile self, IMP::Particles const & particles, IMP::Vector< double > const & surface, IMP::saxs::FormFactorType ff_type)
769 calculate_profile_partial(Profile self, IMP::Particles const & particles, IMP::Vector< double > const & surface)
770 calculate_profile_partial(Profile self, IMP::Particles const & particles)
771 calculate_profile_partial(Profile self, IMP::Particles const & particles1, IMP::Particles const & particles2, IMP::Vector< double > const & surface1, IMP::Vector< double > const & surface2, IMP::saxs::FormFactorType ff_type)
772 calculate_profile_partial(Profile self, IMP::Particles const & particles1, IMP::Particles const & particles2, IMP::Vector< double > const & surface1, IMP::Vector< double > const & surface2)
773 calculate_profile_partial(Profile self, IMP::Particles const & particles1, IMP::Particles const & particles2, IMP::Vector< double > const & surface1)
774 calculate_profile_partial(Profile self, IMP::Particles const & particles1, IMP::Particles const & particles2)
776 return _IMP_saxs.Profile_calculate_profile_partial(self, *args)
779 def calculate_profile_reciprocal_partial(self, *args):
781 calculate_profile_reciprocal_partial(Profile self, IMP::Particles const & particles, IMP::Vector< double > const & surface, IMP::saxs::FormFactorType ff_type)
782 calculate_profile_reciprocal_partial(Profile self, IMP::Particles const & particles, IMP::Vector< double > const & surface)
783 calculate_profile_reciprocal_partial(Profile self, IMP::Particles const & particles)
785 return _IMP_saxs.Profile_calculate_profile_reciprocal_partial(self, *args)
788 def calculate_profile(self, *args):
790 calculate_profile(Profile self, IMP::Particles const & particles, IMP::saxs::FormFactorType ff_type, bool reciprocal=False)
791 calculate_profile(Profile self, IMP::Particles const & particles, IMP::saxs::FormFactorType ff_type)
792 calculate_profile(Profile self, IMP::Particles const & particles)
793 calculate_profile(Profile self, IMP::Particles const & particles1, IMP::Particles const & particles2, IMP::saxs::FormFactorType ff_type)
794 calculate_profile(Profile self, IMP::Particles const & particles1, IMP::Particles const & particles2)
796 return _IMP_saxs.Profile_calculate_profile(self, *args)
799 def calculate_I0(self, *args):
801 calculate_I0(Profile self, IMP::Particles const & particles, IMP::saxs::FormFactorType ff_type) -> double
802 calculate_I0(Profile self, IMP::Particles const & particles) -> double
804 return _IMP_saxs.Profile_calculate_I0(self, *args)
807 def calculate_profile_constant_form_factor(self, particles, form_factor=1.0):
809 calculate_profile_constant_form_factor(Profile self, IMP::Particles const & particles, double form_factor=1.0)
810 calculate_profile_constant_form_factor(Profile self, IMP::Particles const & particles)
812 return _IMP_saxs.Profile_calculate_profile_constant_form_factor(self, particles, form_factor)
815 def calculate_profile_symmetric(self, *args):
817 calculate_profile_symmetric(Profile self, IMP::Particles const & particles, unsigned int n, IMP::saxs::FormFactorType ff_type)
818 calculate_profile_symmetric(Profile self, IMP::Particles const & particles, unsigned int n)
820 return _IMP_saxs.Profile_calculate_profile_symmetric(self, *args)
823 def profile_2_distribution(self, rd, max_distance):
824 """profile_2_distribution(Profile self, RadialDistributionFunction rd, double max_distance)"""
825 return _IMP_saxs.Profile_profile_2_distribution(self, rd, max_distance)
828 def distribution_2_profile(self, r_dist):
829 """distribution_2_profile(Profile self, RadialDistributionFunction r_dist)"""
830 return _IMP_saxs.Profile_distribution_2_profile(self, r_dist)
833 def resample(self, exp_profile, resampled_profile):
834 """resample(Profile self, Profile exp_profile, Profile resampled_profile)"""
835 return _IMP_saxs.Profile_resample(self, exp_profile, resampled_profile)
838 def downsample(self, downsampled_profile, point_number):
839 """downsample(Profile self, Profile downsampled_profile, unsigned int point_number)"""
840 return _IMP_saxs.Profile_downsample(self, downsampled_profile, point_number)
845 radius_of_gyration(Profile self, double end_q_rg=1.3) -> double
846 radius_of_gyration(Profile self) -> double
848 return _IMP_saxs.Profile_radius_of_gyration(self, end_q_rg)
851 def mean_intensity(self):
852 """mean_intensity(Profile self) -> double"""
853 return _IMP_saxs.Profile_mean_intensity(self)
856 def read_SAXS_file(self, file_name, fit_file=False, max_q=0.0, units=1):
858 read_SAXS_file(Profile self, std::string const & file_name, bool fit_file=False, double max_q=0.0, int units=1)
859 read_SAXS_file(Profile self, std::string const & file_name, bool fit_file=False, double max_q=0.0)
860 read_SAXS_file(Profile self, std::string const & file_name, bool fit_file=False)
861 read_SAXS_file(Profile self, std::string const & file_name)
863 return _IMP_saxs.Profile_read_SAXS_file(self, file_name, fit_file, max_q, units)
866 def write_SAXS_file(self, file_name, max_q=0.0):
868 write_SAXS_file(Profile self, std::string const & file_name, double max_q=0.0)
869 write_SAXS_file(Profile self, std::string const & file_name)
871 return _IMP_saxs.Profile_write_SAXS_file(self, file_name, max_q)
874 def read_partial_profiles(self, file_name):
875 """read_partial_profiles(Profile self, std::string const & file_name)"""
876 return _IMP_saxs.Profile_read_partial_profiles(self, file_name)
879 def write_partial_profiles(self, file_name):
880 """write_partial_profiles(Profile self, std::string const & file_name)"""
881 return _IMP_saxs.Profile_write_partial_profiles(self, file_name)
884 def get_delta_q(self):
885 """get_delta_q(Profile self) -> double"""
886 return _IMP_saxs.Profile_get_delta_q(self)
890 """get_min_q(Profile self) -> double"""
891 return _IMP_saxs.Profile_get_min_q(self)
895 """get_max_q(Profile self) -> double"""
896 return _IMP_saxs.Profile_get_max_q(self)
899 def get_intensity(self, i):
900 """get_intensity(Profile self, unsigned int i) -> double"""
901 return _IMP_saxs.Profile_get_intensity(self, i)
905 """get_q(Profile self, unsigned int i) -> double"""
906 return _IMP_saxs.Profile_get_q(self, i)
909 def get_error(self, i):
910 """get_error(Profile self, unsigned int i) -> double"""
911 return _IMP_saxs.Profile_get_error(self, i)
914 def get_weight(self, i):
915 """get_weight(Profile self, unsigned int i) -> double"""
916 return _IMP_saxs.Profile_get_weight(self, i)
920 """get_qs(Profile self) -> Eigen::VectorXf const &"""
921 return _IMP_saxs.Profile_get_qs(self)
924 def get_intensities(self):
925 """get_intensities(Profile self) -> Eigen::VectorXf const &"""
926 return _IMP_saxs.Profile_get_intensities(self)
929 def get_errors(self):
930 """get_errors(Profile self) -> Eigen::VectorXf const &"""
931 return _IMP_saxs.Profile_get_errors(self)
934 def get_average_radius(self):
935 """get_average_radius(Profile self) -> double"""
936 return _IMP_saxs.Profile_get_average_radius(self)
940 """size(Profile self) -> unsigned int"""
941 return _IMP_saxs.Profile_size(self)
944 def is_uniform_sampling(self):
945 """is_uniform_sampling(Profile self) -> bool"""
946 return _IMP_saxs.Profile_is_uniform_sampling(self)
949 def is_partial_profile(self):
950 """is_partial_profile(Profile self) -> bool"""
951 return _IMP_saxs.Profile_is_partial_profile(self)
955 """get_name(Profile self) -> std::string"""
956 return _IMP_saxs.Profile_get_name(self)
960 """get_id(Profile self) -> unsigned int"""
961 return _IMP_saxs.Profile_get_id(self)
965 """set_qs(Profile self, Eigen::VectorXf const & q)"""
966 return _IMP_saxs.Profile_set_qs(self, q)
969 def set_intensities(self, i):
970 """set_intensities(Profile self, Eigen::VectorXf const & i)"""
971 return _IMP_saxs.Profile_set_intensities(self, i)
974 def set_errors(self, e):
975 """set_errors(Profile self, Eigen::VectorXf const & e)"""
976 return _IMP_saxs.Profile_set_errors(self, e)
979 def set_intensity(self, i, iq):
980 """set_intensity(Profile self, unsigned int i, double iq)"""
981 return _IMP_saxs.Profile_set_intensity(self, i, iq)
984 def set_ff_table(self, ff_table):
985 """set_ff_table(Profile self, FormFactorTable ff_table)"""
986 return _IMP_saxs.Profile_set_ff_table(self, ff_table)
989 def set_average_radius(self, r):
990 """set_average_radius(Profile self, double r)"""
991 return _IMP_saxs.Profile_set_average_radius(self, r)
994 def set_average_volume(self, v):
995 """set_average_volume(Profile self, double v)"""
996 return _IMP_saxs.Profile_set_average_volume(self, v)
999 def set_name(self, name):
1000 """set_name(Profile self, std::string name)"""
1001 return _IMP_saxs.Profile_set_name(self, name)
1004 def set_id(self, id):
1005 """set_id(Profile self, unsigned int id)"""
1006 return _IMP_saxs.Profile_set_id(self, id)
1009 def set_beam_profile(self, beam_profile_file):
1010 """set_beam_profile(Profile self, std::string beam_profile_file)"""
1011 return _IMP_saxs.Profile_set_beam_profile(self, beam_profile_file)
1014 def add_errors(self):
1015 """add_errors(Profile self)"""
1016 return _IMP_saxs.Profile_add_errors(self)
1019 def add_noise(self, percentage=0.03):
1021 add_noise(Profile self, double percentage=0.03)
1022 add_noise(Profile self)
1024 return _IMP_saxs.Profile_add_noise(self, percentage)
1027 def sum_partial_profiles(self, c1, c2, check_cashed=True):
1029 sum_partial_profiles(Profile self, double c1, double c2, bool check_cashed=True)
1030 sum_partial_profiles(Profile self, double c1, double c2)
1032 return _IMP_saxs.Profile_sum_partial_profiles(self, c1, c2, check_cashed)
1035 def add(self, *args):
1037 add(Profile self, Profile other_profile, double weight=1.0)
1038 add(Profile self, Profile other_profile)
1039 add(Profile self, IMP::Vector< IMP::saxs::Profile * > const & profiles, IMP::Vector< double > const & weights)
1040 add(Profile self, IMP::Vector< IMP::saxs::Profile * > const & profiles)
1042 return _IMP_saxs.Profile_add(self, *args)
1045 def add_partial_profiles(self, *args):
1047 add_partial_profiles(Profile self, Profile other_profile, double weight=1.0)
1048 add_partial_profiles(Profile self, Profile other_profile)
1049 add_partial_profiles(Profile self, IMP::Vector< IMP::saxs::Profile * > const & profiles, IMP::Vector< double > const & weights)
1050 add_partial_profiles(Profile self, IMP::Vector< IMP::saxs::Profile * > const & profiles)
1052 return _IMP_saxs.Profile_add_partial_profiles(self, *args)
1055 def background_adjust(self, start_q):
1056 """background_adjust(Profile self, double start_q)"""
1057 return _IMP_saxs.Profile_background_adjust(self, start_q)
1061 """scale(Profile self, double c)"""
1062 return _IMP_saxs.Profile_scale(self, c)
1065 def offset(self, c):
1066 """offset(Profile self, double c)"""
1067 return _IMP_saxs.Profile_offset(self, c)
1070 def copy_errors(self, exp_profile):
1071 """copy_errors(Profile self, Profile exp_profile)"""
1072 return _IMP_saxs.Profile_copy_errors(self, exp_profile)
1075 def get_version_info(self):
1076 """get_version_info(Profile self) -> VersionInfo"""
1077 return _IMP_saxs.Profile_get_version_info(self)
1081 """__str__(Profile self) -> std::string"""
1082 return _IMP_saxs.Profile___str__(self)
1086 """__repr__(Profile self) -> std::string"""
1087 return _IMP_saxs.Profile___repr__(self)
1092 return _object_cast_to_Profile(o)
1094 Profile_swigregister = _IMP_saxs.Profile_swigregister
1095 Profile_swigregister(Profile)
1096 Profile.modulation_function_parameter_ = _IMP_saxs.cvar.Profile_modulation_function_parameter_
1098 class FitParameters(object):
1099 """Proxy of C++ IMP::saxs::FitParameters class."""
1101 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
1102 __repr__ = _swig_repr
1104 def __init__(self, *args):
1106 __init__(IMP::saxs::FitParameters self) -> FitParameters
1107 __init__(IMP::saxs::FitParameters self, double chi_square, double c1, double c2, double c, double o) -> FitParameters
1108 __init__(IMP::saxs::FitParameters self, double chi_square, double c1, double c2) -> FitParameters
1110 this = _IMP_saxs.new_FitParameters(*args)
1112 self.this.append(this)
1113 except __builtin__.Exception:
1116 def get_score(self):
1117 """get_score(FitParameters self) -> double"""
1118 return _IMP_saxs.FitParameters_get_score(self)
1121 def get_chi_square(self):
1122 """get_chi_square(FitParameters self) -> double"""
1123 return _IMP_saxs.FitParameters_get_chi_square(self)
1127 """get_c1(FitParameters self) -> double"""
1128 return _IMP_saxs.FitParameters_get_c1(self)
1132 """get_c2(FitParameters self) -> double"""
1133 return _IMP_saxs.FitParameters_get_c2(self)
1136 def get_scale(self):
1137 """get_scale(FitParameters self) -> double"""
1138 return _IMP_saxs.FitParameters_get_scale(self)
1141 def get_offset(self):
1142 """get_offset(FitParameters self) -> double"""
1143 return _IMP_saxs.FitParameters_get_offset(self)
1146 def get_default_chi_square(self):
1147 """get_default_chi_square(FitParameters self) -> double"""
1148 return _IMP_saxs.FitParameters_get_default_chi_square(self)
1151 def get_pdb_file_name(self):
1152 """get_pdb_file_name(FitParameters self) -> std::string"""
1153 return _IMP_saxs.FitParameters_get_pdb_file_name(self)
1156 def get_profile_file_name(self):
1157 """get_profile_file_name(FitParameters self) -> std::string"""
1158 return _IMP_saxs.FitParameters_get_profile_file_name(self)
1161 def get_mol_index(self):
1162 """get_mol_index(FitParameters self) -> int"""
1163 return _IMP_saxs.FitParameters_get_mol_index(self)
1166 def set_score(self, score):
1167 """set_score(FitParameters self, double score)"""
1168 return _IMP_saxs.FitParameters_set_score(self, score)
1171 def set_chi_square(self, chi_square):
1172 """set_chi_square(FitParameters self, double chi_square)"""
1173 return _IMP_saxs.FitParameters_set_chi_square(self, chi_square)
1176 def set_default_chi_square(self, chi_square):
1177 """set_default_chi_square(FitParameters self, double chi_square)"""
1178 return _IMP_saxs.FitParameters_set_default_chi_square(self, chi_square)
1181 def set_profile_file_name(self, file_name):
1182 """set_profile_file_name(FitParameters self, std::string file_name)"""
1183 return _IMP_saxs.FitParameters_set_profile_file_name(self, file_name)
1186 def set_pdb_file_name(self, file_name):
1187 """set_pdb_file_name(FitParameters self, std::string file_name)"""
1188 return _IMP_saxs.FitParameters_set_pdb_file_name(self, file_name)
1191 def set_mol_index(self, index):
1192 """set_mol_index(FitParameters self, int index)"""
1193 return _IMP_saxs.FitParameters_set_mol_index(self, index)
1197 """show(FitParameters self, _ostream s)"""
1198 return _IMP_saxs.FitParameters_show(self, s)
1200 __swig_destroy__ = _IMP_saxs.delete_FitParameters
1201 __del__ =
lambda self:
None
1202 FitParameters_swigregister = _IMP_saxs.FitParameters_swigregister
1203 FitParameters_swigregister(FitParameters)
1205 class WeightedFitParameters(FitParameters):
1206 """Proxy of C++ IMP::saxs::WeightedFitParameters class."""
1208 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
1209 __repr__ = _swig_repr
1211 def __init__(self, *args):
1213 __init__(IMP::saxs::WeightedFitParameters self) -> WeightedFitParameters
1214 __init__(IMP::saxs::WeightedFitParameters self, double chi_square, double c1, double c2, IMP::Vector< double > const & weights) -> WeightedFitParameters
1216 this = _IMP_saxs.new_WeightedFitParameters(*args)
1218 self.this.append(this)
1219 except __builtin__.Exception:
1222 def get_weights(self):
1223 """get_weights(WeightedFitParameters self) -> IMP::Vector< double > const &"""
1224 return _IMP_saxs.WeightedFitParameters_get_weights(self)
1227 def set_weights(self, weights):
1228 """set_weights(WeightedFitParameters self, IMP::Vector< double > const & weights)"""
1229 return _IMP_saxs.WeightedFitParameters_set_weights(self, weights)
1233 """show(WeightedFitParameters self, _ostream s)"""
1234 return _IMP_saxs.WeightedFitParameters_show(self, s)
1236 __swig_destroy__ = _IMP_saxs.delete_WeightedFitParameters
1237 __del__ =
lambda self:
None
1238 WeightedFitParameters_swigregister = _IMP_saxs.WeightedFitParameters_swigregister
1239 WeightedFitParameters_swigregister(WeightedFitParameters)
1242 """Proxy of C++ IMP::saxs::ChiScore class."""
1244 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
1247 """__init__(IMP::saxs::ChiScore self) -> ChiScore"""
1248 this = _IMP_saxs.new_ChiScore()
1250 self.this.append(this)
1251 except __builtin__.Exception:
1254 def compute_score(self, exp_profile, model_profile, use_offset=False):
1256 compute_score(ChiScore self, Profile exp_profile, Profile model_profile, bool use_offset=False) -> double
1257 compute_score(ChiScore self, Profile exp_profile, Profile model_profile) -> double
1259 return _IMP_saxs.ChiScore_compute_score(self, exp_profile, model_profile, use_offset)
1262 def compute_scale_factor(self, exp_profile, model_profile, offset=0.0):
1264 compute_scale_factor(ChiScore self, Profile exp_profile, Profile model_profile, double offset=0.0) -> double
1265 compute_scale_factor(ChiScore self, Profile exp_profile, Profile model_profile) -> double
1267 return _IMP_saxs.ChiScore_compute_scale_factor(self, exp_profile, model_profile, offset)
1270 def compute_offset(self, exp_profile, model_profile):
1271 """compute_offset(ChiScore self, Profile exp_profile, Profile model_profile) -> double"""
1272 return _IMP_saxs.ChiScore_compute_offset(self, exp_profile, model_profile)
1275 def get_version_info(self):
1276 """get_version_info(ChiScore self) -> VersionInfo"""
1277 return _IMP_saxs.ChiScore_get_version_info(self)
1281 """__str__(ChiScore self) -> std::string"""
1282 return _IMP_saxs.ChiScore___str__(self)
1286 """__repr__(ChiScore self) -> std::string"""
1287 return _IMP_saxs.ChiScore___repr__(self)
1292 return _object_cast_to_ChiScore(o)
1294 ChiScore_swigregister = _IMP_saxs.ChiScore_swigregister
1295 ChiScore_swigregister(ChiScore)
1298 """Proxy of C++ IMP::saxs::ChiScoreLog class."""
1300 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
1303 """__init__(IMP::saxs::ChiScoreLog self) -> ChiScoreLog"""
1304 this = _IMP_saxs.new_ChiScoreLog()
1306 self.this.append(this)
1307 except __builtin__.Exception:
1310 def compute_score(self, *args):
1312 compute_score(ChiScoreLog self, Profile exp_profile, Profile model_profile, bool use_offset=False) -> double
1313 compute_score(ChiScoreLog self, Profile exp_profile, Profile model_profile) -> double
1314 compute_score(ChiScoreLog self, Profile exp_profile, Profile model_profile, double min_q, double max_q) -> double
1316 return _IMP_saxs.ChiScoreLog_compute_score(self, *args)
1319 def compute_scale_factor(self, exp_profile, model_profile, offset=0.0):
1321 compute_scale_factor(ChiScoreLog self, Profile exp_profile, Profile model_profile, double offset=0.0) -> double
1322 compute_scale_factor(ChiScoreLog self, Profile exp_profile, Profile model_profile) -> double
1324 return _IMP_saxs.ChiScoreLog_compute_scale_factor(self, exp_profile, model_profile, offset)
1327 def compute_offset(self, exp_profile, model_profile):
1328 """compute_offset(ChiScoreLog self, Profile exp_profile, Profile model_profile) -> double"""
1329 return _IMP_saxs.ChiScoreLog_compute_offset(self, exp_profile, model_profile)
1332 def get_version_info(self):
1333 """get_version_info(ChiScoreLog self) -> VersionInfo"""
1334 return _IMP_saxs.ChiScoreLog_get_version_info(self)
1338 """__str__(ChiScoreLog self) -> std::string"""
1339 return _IMP_saxs.ChiScoreLog___str__(self)
1343 """__repr__(ChiScoreLog self) -> std::string"""
1344 return _IMP_saxs.ChiScoreLog___repr__(self)
1349 return _object_cast_to_ChiScoreLog(o)
1351 ChiScoreLog_swigregister = _IMP_saxs.ChiScoreLog_swigregister
1352 ChiScoreLog_swigregister(ChiScoreLog)
1355 """Proxy of C++ IMP::saxs::ProfileFitter<(IMP::saxs::ChiScore)> class."""
1357 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
1358 __repr__ = _swig_repr
1360 def __init__(self, *args):
1362 __init__(IMP::saxs::ProfileFitter<(IMP::saxs::ChiScore)> self, Profile exp_profile) -> ProfileFitterChi
1363 __init__(IMP::saxs::ProfileFitter<(IMP::saxs::ChiScore)> self, Profile exp_profile, ChiScore sf) -> ProfileFitterChi
1365 this = _IMP_saxs.new_ProfileFitterChi(*args)
1367 self.this.append(this)
1368 except __builtin__.Exception:
1371 def compute_score(self, *args):
1373 compute_score(ProfileFitterChi self, Profile model_profile, bool use_offset=False, std::string const fit_file_name) -> double
1374 compute_score(ProfileFitterChi self, Profile model_profile, bool use_offset=False) -> double
1375 compute_score(ProfileFitterChi self, Profile model_profile) -> double
1377 return _IMP_saxs.ProfileFitterChi_compute_score(self, *args)
1380 def fit_profile(self, *args):
1382 fit_profile(ProfileFitterChi self, Profile partial_profile, double min_c1=0.95, double max_c1=1.05, double min_c2=-2.0, double max_c2=4.0, bool use_offset=False, std::string const fit_file_name) -> FitParameters
1383 fit_profile(ProfileFitterChi self, Profile partial_profile, double min_c1=0.95, double max_c1=1.05, double min_c2=-2.0, double max_c2=4.0, bool use_offset=False) -> FitParameters
1384 fit_profile(ProfileFitterChi self, Profile partial_profile, double min_c1=0.95, double max_c1=1.05, double min_c2=-2.0, double max_c2=4.0) -> FitParameters
1385 fit_profile(ProfileFitterChi self, Profile partial_profile, double min_c1=0.95, double max_c1=1.05, double min_c2=-2.0) -> FitParameters
1386 fit_profile(ProfileFitterChi self, Profile partial_profile, double min_c1=0.95, double max_c1=1.05) -> FitParameters
1387 fit_profile(ProfileFitterChi self, Profile partial_profile, double min_c1=0.95) -> FitParameters
1388 fit_profile(ProfileFitterChi self, Profile partial_profile) -> FitParameters
1390 return _IMP_saxs.ProfileFitterChi_fit_profile(self, *args)
1393 def compute_scale_factor(self, model_profile, offset=0.0):
1395 compute_scale_factor(ProfileFitterChi self, Profile model_profile, double offset=0.0) -> double
1396 compute_scale_factor(ProfileFitterChi self, Profile model_profile) -> double
1398 return _IMP_saxs.ProfileFitterChi_compute_scale_factor(self, model_profile, offset)
1401 def compute_offset(self, model_profile):
1402 """compute_offset(ProfileFitterChi self, Profile model_profile) -> double"""
1403 return _IMP_saxs.ProfileFitterChi_compute_offset(self, model_profile)
1406 def resample(self, model_profile, resampled_profile):
1407 """resample(ProfileFitterChi self, Profile model_profile, Profile resampled_profile)"""
1408 return _IMP_saxs.ProfileFitterChi_resample(self, model_profile, resampled_profile)
1411 def write_SAXS_fit_file(self, file_name, model_profile, chi_square, c=1, offset=0):
1413 write_SAXS_fit_file(ProfileFitterChi self, std::string const & file_name, Profile model_profile, double const chi_square, double const c=1, double const offset=0)
1414 write_SAXS_fit_file(ProfileFitterChi self, std::string const & file_name, Profile model_profile, double const chi_square, double const c=1)
1415 write_SAXS_fit_file(ProfileFitterChi self, std::string const & file_name, Profile model_profile, double const chi_square)
1417 return _IMP_saxs.ProfileFitterChi_write_SAXS_fit_file(self, file_name, model_profile, chi_square, c, offset)
1420 def get_profile(self):
1421 """get_profile(ProfileFitterChi self) -> Profile"""
1422 return _IMP_saxs.ProfileFitterChi_get_profile(self)
1424 __swig_destroy__ = _IMP_saxs.delete_ProfileFitterChi
1425 __del__ =
lambda self:
None
1426 ProfileFitterChi_swigregister = _IMP_saxs.ProfileFitterChi_swigregister
1427 ProfileFitterChi_swigregister(ProfileFitterChi)
1429 class WeightedProfileFitterChi(ProfileFitterChi):
1430 """Proxy of C++ IMP::saxs::WeightedProfileFitter<(IMP::saxs::ChiScore)> class."""
1432 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
1433 __repr__ = _swig_repr
1435 def __init__(self, exp_profile):
1436 """__init__(IMP::saxs::WeightedProfileFitter<(IMP::saxs::ChiScore)> self, Profile exp_profile) -> WeightedProfileFitterChi"""
1437 this = _IMP_saxs.new_WeightedProfileFitterChi(exp_profile)
1439 self.this.append(this)
1440 except __builtin__.Exception:
1443 def compute_score(self, profiles, weights, use_offset=False, NNLS=True):
1445 compute_score(WeightedProfileFitterChi self, IMP::saxs::ProfilesTemp const & profiles, IMP::Vector< double > & weights, bool use_offset=False, bool NNLS=True) -> double
1446 compute_score(WeightedProfileFitterChi self, IMP::saxs::ProfilesTemp const & profiles, IMP::Vector< double > & weights, bool use_offset=False) -> double
1447 compute_score(WeightedProfileFitterChi self, IMP::saxs::ProfilesTemp const & profiles, IMP::Vector< double > & weights) -> double
1449 return _IMP_saxs.WeightedProfileFitterChi_compute_score(self, profiles, weights, use_offset, NNLS)
1452 def fit_profile(self, partial_profiles, min_c1=0.95, max_c1=1.05, min_c2=-2.0, max_c2=4.0, use_offset=False):
1454 fit_profile(WeightedProfileFitterChi self, IMP::saxs::ProfilesTemp partial_profiles, double min_c1=0.95, double max_c1=1.05, double min_c2=-2.0, double max_c2=4.0, bool use_offset=False) -> WeightedFitParameters
1455 fit_profile(WeightedProfileFitterChi self, IMP::saxs::ProfilesTemp partial_profiles, double min_c1=0.95, double max_c1=1.05, double min_c2=-2.0, double max_c2=4.0) -> WeightedFitParameters
1456 fit_profile(WeightedProfileFitterChi self, IMP::saxs::ProfilesTemp partial_profiles, double min_c1=0.95, double max_c1=1.05, double min_c2=-2.0) -> WeightedFitParameters
1457 fit_profile(WeightedProfileFitterChi self, IMP::saxs::ProfilesTemp partial_profiles, double min_c1=0.95, double max_c1=1.05) -> WeightedFitParameters
1458 fit_profile(WeightedProfileFitterChi self, IMP::saxs::ProfilesTemp partial_profiles, double min_c1=0.95) -> WeightedFitParameters
1459 fit_profile(WeightedProfileFitterChi self, IMP::saxs::ProfilesTemp partial_profiles) -> WeightedFitParameters
1461 return _IMP_saxs.WeightedProfileFitterChi_fit_profile(self, partial_profiles, min_c1, max_c1, min_c2, max_c2, use_offset)
1464 def write_fit_file(self, partial_profiles, fp, fit_file_name, use_offset=False):
1466 write_fit_file(WeightedProfileFitterChi self, IMP::saxs::ProfilesTemp partial_profiles, WeightedFitParameters fp, std::string const fit_file_name, bool use_offset=False)
1467 write_fit_file(WeightedProfileFitterChi self, IMP::saxs::ProfilesTemp partial_profiles, WeightedFitParameters fp, std::string const fit_file_name)
1469 return _IMP_saxs.WeightedProfileFitterChi_write_fit_file(self, partial_profiles, fp, fit_file_name, use_offset)
1471 __swig_destroy__ = _IMP_saxs.delete_WeightedProfileFitterChi
1472 __del__ =
lambda self:
None
1473 WeightedProfileFitterChi_swigregister = _IMP_saxs.WeightedProfileFitterChi_swigregister
1474 WeightedProfileFitterChi_swigregister(WeightedProfileFitterChi)
1477 """Proxy of C++ IMP::saxs::Restraint class."""
1479 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
1480 __repr__ = _swig_repr
1482 def __init__(self, *args):
1484 __init__(IMP::saxs::Restraint self, IMP::Particles const & particles, Profile exp_profile, IMP::saxs::FormFactorType ff_type) -> Restraint
1485 __init__(IMP::saxs::Restraint self, IMP::Particles const & particles, Profile exp_profile) -> Restraint
1487 this = _IMP_saxs.new_Restraint(*args)
1489 self.this.append(this)
1490 except __builtin__.Exception:
1493 if self.__class__ != Restraint:
1494 _director_objects.register(self)
1499 def do_get_inputs(self):
1500 """do_get_inputs(Restraint self) -> IMP::ModelObjectsTemp"""
1501 return _IMP_saxs.Restraint_do_get_inputs(self)
1504 def get_version_info(self):
1505 """get_version_info(Restraint self) -> VersionInfo"""
1506 return _IMP_saxs.Restraint_get_version_info(self)
1508 Restraint_swigregister = _IMP_saxs.Restraint_swigregister
1509 Restraint_swigregister(Restraint)
1511 class RadiusOfGyrationRestraint(Restraint):
1512 """Proxy of C++ IMP::saxs::RadiusOfGyrationRestraint class."""
1514 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
1515 __repr__ = _swig_repr
1517 def __init__(self, particles, exp_profile, end_q_rg=1.3):
1519 __init__(IMP::saxs::RadiusOfGyrationRestraint self, IMP::Particles const & particles, Profile exp_profile, double const end_q_rg=1.3) -> RadiusOfGyrationRestraint
1520 __init__(IMP::saxs::RadiusOfGyrationRestraint self, IMP::Particles const & particles, Profile exp_profile) -> RadiusOfGyrationRestraint
1522 this = _IMP_saxs.new_RadiusOfGyrationRestraint(particles, exp_profile, end_q_rg)
1524 self.this.append(this)
1525 except __builtin__.Exception:
1527 RadiusOfGyrationRestraint_swigregister = _IMP_saxs.RadiusOfGyrationRestraint_swigregister
1528 RadiusOfGyrationRestraint_swigregister(RadiusOfGyrationRestraint)
1530 class FloatDistribution(DistBase):
1531 """Proxy of C++ IMP::saxs::Distribution<(double)> class."""
1533 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
1534 __repr__ = _swig_repr
1536 def __init__(self, *args):
1538 __init__(IMP::saxs::Distribution<(double)> self, double bin_size) -> FloatDistribution
1539 __init__(IMP::saxs::Distribution<(double)> self) -> FloatDistribution
1541 this = _IMP_saxs.new_FloatDistribution(*args)
1543 self.this.append(this)
1544 except __builtin__.Exception:
1547 def get_max_distance(self):
1548 """get_max_distance(FloatDistribution self) -> double"""
1549 return _IMP_saxs.FloatDistribution_get_max_distance(self)
1552 def get_bin_size(self):
1553 """get_bin_size(FloatDistribution self) -> double"""
1554 return _IMP_saxs.FloatDistribution_get_bin_size(self)
1557 def get_index_from_distance(self, dist):
1558 """get_index_from_distance(FloatDistribution self, double dist) -> unsigned int"""
1559 return _IMP_saxs.FloatDistribution_get_index_from_distance(self, dist)
1562 def get_distance_from_index(self, index):
1563 """get_distance_from_index(FloatDistribution self, unsigned int index) -> double"""
1564 return _IMP_saxs.FloatDistribution_get_distance_from_index(self, index)
1566 __swig_destroy__ = _IMP_saxs.delete_FloatDistribution
1567 __del__ =
lambda self:
None
1568 FloatDistribution_swigregister = _IMP_saxs.FloatDistribution_swigregister
1569 FloatDistribution_swigregister(FloatDistribution)
1571 class VectorDistribution(object):
1572 """Proxy of C++ IMP::saxs::Distribution<(IMP::algebra::Vector3D)> class."""
1574 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
1575 __repr__ = _swig_repr
1577 def __init__(self, *args):
1579 __init__(IMP::saxs::Distribution<(IMP::algebra::Vector3D)> self, double bin_size) -> VectorDistribution
1580 __init__(IMP::saxs::Distribution<(IMP::algebra::Vector3D)> self) -> VectorDistribution
1582 this = _IMP_saxs.new_VectorDistribution(*args)
1584 self.this.append(this)
1585 except __builtin__.Exception:
1588 def get_max_distance(self):
1589 """get_max_distance(VectorDistribution self) -> double"""
1590 return _IMP_saxs.VectorDistribution_get_max_distance(self)
1593 def get_bin_size(self):
1594 """get_bin_size(VectorDistribution self) -> double"""
1595 return _IMP_saxs.VectorDistribution_get_bin_size(self)
1598 def get_index_from_distance(self, dist):
1599 """get_index_from_distance(VectorDistribution self, double dist) -> unsigned int"""
1600 return _IMP_saxs.VectorDistribution_get_index_from_distance(self, dist)
1603 def get_distance_from_index(self, index):
1604 """get_distance_from_index(VectorDistribution self, unsigned int index) -> double"""
1605 return _IMP_saxs.VectorDistribution_get_distance_from_index(self, index)
1607 __swig_destroy__ = _IMP_saxs.delete_VectorDistribution
1608 __del__ =
lambda self:
None
1609 VectorDistribution_swigregister = _IMP_saxs.VectorDistribution_swigregister
1610 VectorDistribution_swigregister(VectorDistribution)
1612 class RadialDistributionFunction(FloatDistribution):
1613 """Proxy of C++ IMP::saxs::RadialDistributionFunction class."""
1615 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
1616 __repr__ = _swig_repr
1618 def __init__(self, *args):
1620 __init__(IMP::saxs::RadialDistributionFunction self, double bin_size) -> RadialDistributionFunction
1621 __init__(IMP::saxs::RadialDistributionFunction self) -> RadialDistributionFunction
1622 __init__(IMP::saxs::RadialDistributionFunction self, std::string const & file_name) -> RadialDistributionFunction
1624 this = _IMP_saxs.new_RadialDistributionFunction(*args)
1626 self.this.append(this)
1627 except __builtin__.Exception:
1631 """scale(RadialDistributionFunction self, double c)"""
1632 return _IMP_saxs.RadialDistributionFunction_scale(self, c)
1635 def add(self, model_pr):
1636 """add(RadialDistributionFunction self, RadialDistributionFunction model_pr)"""
1637 return _IMP_saxs.RadialDistributionFunction_add(self, model_pr)
1640 def show(self, *args):
1642 show(RadialDistributionFunction self, _ostream out)
1643 show(RadialDistributionFunction self)
1645 return _IMP_saxs.RadialDistributionFunction_show(self, *args)
1648 def R_factor_score(self, *args):
1650 R_factor_score(RadialDistributionFunction self, RadialDistributionFunction model_pr, std::string const & file_name) -> double
1651 R_factor_score(RadialDistributionFunction self, RadialDistributionFunction model_pr) -> double
1653 return _IMP_saxs.RadialDistributionFunction_R_factor_score(self, *args)
1656 def fit(self, *args):
1658 fit(RadialDistributionFunction self, RadialDistributionFunction model_pr, std::string const & file_name) -> double
1659 fit(RadialDistributionFunction self, RadialDistributionFunction model_pr) -> double
1661 return _IMP_saxs.RadialDistributionFunction_fit(self, *args)
1664 def normalize(self):
1665 """normalize(RadialDistributionFunction self)"""
1666 return _IMP_saxs.RadialDistributionFunction_normalize(self)
1669 def add_to_distribution(self, dist, value):
1670 """add_to_distribution(RadialDistributionFunction self, double dist, double value)"""
1671 return _IMP_saxs.RadialDistributionFunction_add_to_distribution(self, dist, value)
1673 __swig_destroy__ = _IMP_saxs.delete_RadialDistributionFunction
1674 __del__ =
lambda self:
None
1675 RadialDistributionFunction_swigregister = _IMP_saxs.RadialDistributionFunction_swigregister
1676 RadialDistributionFunction_swigregister(RadialDistributionFunction)
1678 class DeltaDistributionFunction(VectorDistribution):
1679 """Proxy of C++ IMP::saxs::DeltaDistributionFunction class."""
1681 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
1682 __repr__ = _swig_repr
1684 def __init__(self, *args):
1686 __init__(IMP::saxs::DeltaDistributionFunction self, IMP::Particles const & particles, double max_distance=0.0, double bin_size) -> DeltaDistributionFunction
1687 __init__(IMP::saxs::DeltaDistributionFunction self, IMP::Particles const & particles, double max_distance=0.0) -> DeltaDistributionFunction
1688 __init__(IMP::saxs::DeltaDistributionFunction self, IMP::Particles const & particles) -> DeltaDistributionFunction
1690 this = _IMP_saxs.new_DeltaDistributionFunction(*args)
1692 self.this.append(this)
1693 except __builtin__.Exception:
1696 def calculate_derivative_distribution(self, particle):
1697 """calculate_derivative_distribution(DeltaDistributionFunction self, Particle particle)"""
1698 return _IMP_saxs.DeltaDistributionFunction_calculate_derivative_distribution(self, particle)
1701 def show(self, *args):
1703 show(DeltaDistributionFunction self, _ostream out, std::string prefix)
1704 show(DeltaDistributionFunction self, _ostream out)
1705 show(DeltaDistributionFunction self)
1707 return _IMP_saxs.DeltaDistributionFunction_show(self, *args)
1709 __swig_destroy__ = _IMP_saxs.delete_DeltaDistributionFunction
1710 __del__ =
lambda self:
None
1711 DeltaDistributionFunction_swigregister = _IMP_saxs.DeltaDistributionFunction_swigregister
1712 DeltaDistributionFunction_swigregister(DeltaDistributionFunction)
1714 class SolventAccessibleSurface(object):
1715 """Proxy of C++ IMP::saxs::SolventAccessibleSurface class."""
1717 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
1718 __repr__ = _swig_repr
1720 def get_solvent_accessibility(self, points, probe_radius=1.8, density=5.0):
1722 get_solvent_accessibility(SolventAccessibleSurface self, IMP::core::XYZRs const & points, double probe_radius=1.8, double density=5.0) -> IMP::Vector< double >
1723 get_solvent_accessibility(SolventAccessibleSurface self, IMP::core::XYZRs const & points, double probe_radius=1.8) -> IMP::Vector< double >
1724 get_solvent_accessibility(SolventAccessibleSurface self, IMP::core::XYZRs const & points) -> IMP::Vector< double >
1726 return _IMP_saxs.SolventAccessibleSurface_get_solvent_accessibility(self, points, probe_radius, density)
1730 """__init__(IMP::saxs::SolventAccessibleSurface self) -> SolventAccessibleSurface"""
1731 this = _IMP_saxs.new_SolventAccessibleSurface()
1733 self.this.append(this)
1734 except __builtin__.Exception:
1736 __swig_destroy__ = _IMP_saxs.delete_SolventAccessibleSurface
1737 __del__ =
lambda self:
None
1738 SolventAccessibleSurface_swigregister = _IMP_saxs.SolventAccessibleSurface_swigregister
1739 SolventAccessibleSurface_swigregister(SolventAccessibleSurface)
1742 """Proxy of C++ IMP::saxs::ProfileFitter<(IMP::saxs::ChiScoreLog)> class."""
1744 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
1745 __repr__ = _swig_repr
1747 def __init__(self, *args):
1749 __init__(IMP::saxs::ProfileFitter<(IMP::saxs::ChiScoreLog)> self, Profile exp_profile) -> ProfileFitterChiLog
1750 __init__(IMP::saxs::ProfileFitter<(IMP::saxs::ChiScoreLog)> self, Profile exp_profile, ChiScoreLog sf) -> ProfileFitterChiLog
1752 this = _IMP_saxs.new_ProfileFitterChiLog(*args)
1754 self.this.append(this)
1755 except __builtin__.Exception:
1758 def compute_score(self, *args):
1760 compute_score(ProfileFitterChiLog self, Profile model_profile, bool use_offset=False, std::string const fit_file_name) -> double
1761 compute_score(ProfileFitterChiLog self, Profile model_profile, bool use_offset=False) -> double
1762 compute_score(ProfileFitterChiLog self, Profile model_profile) -> double
1764 return _IMP_saxs.ProfileFitterChiLog_compute_score(self, *args)
1767 def fit_profile(self, *args):
1769 fit_profile(ProfileFitterChiLog self, Profile partial_profile, double min_c1=0.95, double max_c1=1.05, double min_c2=-2.0, double max_c2=4.0, bool use_offset=False, std::string const fit_file_name) -> FitParameters
1770 fit_profile(ProfileFitterChiLog self, Profile partial_profile, double min_c1=0.95, double max_c1=1.05, double min_c2=-2.0, double max_c2=4.0, bool use_offset=False) -> FitParameters
1771 fit_profile(ProfileFitterChiLog self, Profile partial_profile, double min_c1=0.95, double max_c1=1.05, double min_c2=-2.0, double max_c2=4.0) -> FitParameters
1772 fit_profile(ProfileFitterChiLog self, Profile partial_profile, double min_c1=0.95, double max_c1=1.05, double min_c2=-2.0) -> FitParameters
1773 fit_profile(ProfileFitterChiLog self, Profile partial_profile, double min_c1=0.95, double max_c1=1.05) -> FitParameters
1774 fit_profile(ProfileFitterChiLog self, Profile partial_profile, double min_c1=0.95) -> FitParameters
1775 fit_profile(ProfileFitterChiLog self, Profile partial_profile) -> FitParameters
1777 return _IMP_saxs.ProfileFitterChiLog_fit_profile(self, *args)
1780 def compute_scale_factor(self, model_profile, offset=0.0):
1782 compute_scale_factor(ProfileFitterChiLog self, Profile model_profile, double offset=0.0) -> double
1783 compute_scale_factor(ProfileFitterChiLog self, Profile model_profile) -> double
1785 return _IMP_saxs.ProfileFitterChiLog_compute_scale_factor(self, model_profile, offset)
1788 def compute_offset(self, model_profile):
1789 """compute_offset(ProfileFitterChiLog self, Profile model_profile) -> double"""
1790 return _IMP_saxs.ProfileFitterChiLog_compute_offset(self, model_profile)
1793 def resample(self, model_profile, resampled_profile):
1794 """resample(ProfileFitterChiLog self, Profile model_profile, Profile resampled_profile)"""
1795 return _IMP_saxs.ProfileFitterChiLog_resample(self, model_profile, resampled_profile)
1798 def write_SAXS_fit_file(self, file_name, model_profile, chi_square, c=1, offset=0):
1800 write_SAXS_fit_file(ProfileFitterChiLog self, std::string const & file_name, Profile model_profile, double const chi_square, double const c=1, double const offset=0)
1801 write_SAXS_fit_file(ProfileFitterChiLog self, std::string const & file_name, Profile model_profile, double const chi_square, double const c=1)
1802 write_SAXS_fit_file(ProfileFitterChiLog self, std::string const & file_name, Profile model_profile, double const chi_square)
1804 return _IMP_saxs.ProfileFitterChiLog_write_SAXS_fit_file(self, file_name, model_profile, chi_square, c, offset)
1807 def get_profile(self):
1808 """get_profile(ProfileFitterChiLog self) -> Profile"""
1809 return _IMP_saxs.ProfileFitterChiLog_get_profile(self)
1811 __swig_destroy__ = _IMP_saxs.delete_ProfileFitterChiLog
1812 __del__ =
lambda self:
None
1813 ProfileFitterChiLog_swigregister = _IMP_saxs.ProfileFitterChiLog_swigregister
1814 ProfileFitterChiLog_swigregister(ProfileFitterChiLog)
1816 class ProfileFitterRatioVolatility(
IMP.Object):
1817 """Proxy of C++ IMP::saxs::ProfileFitter<(IMP::saxs::RatioVolatilityScore)> class."""
1819 thisown = _swig_property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
'The membership flag')
1820 __repr__ = _swig_repr
1822 def __init__(self, *args):
1824 __init__(IMP::saxs::ProfileFitter<(IMP::saxs::RatioVolatilityScore)> self, Profile exp_profile) -> ProfileFitterRatioVolatility
1825 __init__(IMP::saxs::ProfileFitter<(IMP::saxs::RatioVolatilityScore)> self, Profile exp_profile, IMP::saxs::RatioVolatilityScore * sf) -> ProfileFitterRatioVolatility
1827 this = _IMP_saxs.new_ProfileFitterRatioVolatility(*args)
1829 self.this.append(this)
1830 except __builtin__.Exception:
1833 def compute_score(self, *args):
1835 compute_score(ProfileFitterRatioVolatility self, Profile model_profile, bool use_offset=False, std::string const fit_file_name) -> double
1836 compute_score(ProfileFitterRatioVolatility self, Profile model_profile, bool use_offset=False) -> double
1837 compute_score(ProfileFitterRatioVolatility self, Profile model_profile) -> double
1839 return _IMP_saxs.ProfileFitterRatioVolatility_compute_score(self, *args)
1842 def fit_profile(self, *args):
1844 fit_profile(ProfileFitterRatioVolatility self, Profile partial_profile, double min_c1=0.95, double max_c1=1.05, double min_c2=-2.0, double max_c2=4.0, bool use_offset=False, std::string const fit_file_name) -> FitParameters
1845 fit_profile(ProfileFitterRatioVolatility self, Profile partial_profile, double min_c1=0.95, double max_c1=1.05, double min_c2=-2.0, double max_c2=4.0, bool use_offset=False) -> FitParameters
1846 fit_profile(ProfileFitterRatioVolatility self, Profile partial_profile, double min_c1=0.95, double max_c1=1.05, double min_c2=-2.0, double max_c2=4.0) -> FitParameters
1847 fit_profile(ProfileFitterRatioVolatility self, Profile partial_profile, double min_c1=0.95, double max_c1=1.05, double min_c2=-2.0) -> FitParameters
1848 fit_profile(ProfileFitterRatioVolatility self, Profile partial_profile, double min_c1=0.95, double max_c1=1.05) -> FitParameters
1849 fit_profile(ProfileFitterRatioVolatility self, Profile partial_profile, double min_c1=0.95) -> FitParameters
1850 fit_profile(ProfileFitterRatioVolatility self, Profile partial_profile) -> FitParameters
1852 return _IMP_saxs.ProfileFitterRatioVolatility_fit_profile(self, *args)
1855 def compute_scale_factor(self, model_profile, offset=0.0):
1857 compute_scale_factor(ProfileFitterRatioVolatility self, Profile model_profile, double offset=0.0) -> double
1858 compute_scale_factor(ProfileFitterRatioVolatility self, Profile model_profile) -> double
1860 return _IMP_saxs.ProfileFitterRatioVolatility_compute_scale_factor(self, model_profile, offset)
1863 def compute_offset(self, model_profile):
1864 """compute_offset(ProfileFitterRatioVolatility self, Profile model_profile) -> double"""
1865 return _IMP_saxs.ProfileFitterRatioVolatility_compute_offset(self, model_profile)
1868 def resample(self, model_profile, resampled_profile):
1869 """resample(ProfileFitterRatioVolatility self, Profile model_profile, Profile resampled_profile)"""
1870 return _IMP_saxs.ProfileFitterRatioVolatility_resample(self, model_profile, resampled_profile)
1873 def write_SAXS_fit_file(self, file_name, model_profile, chi_square, c=1, offset=0):
1875 write_SAXS_fit_file(ProfileFitterRatioVolatility self, std::string const & file_name, Profile model_profile, double const chi_square, double const c=1, double const offset=0)
1876 write_SAXS_fit_file(ProfileFitterRatioVolatility self, std::string const & file_name, Profile model_profile, double const chi_square, double const c=1)
1877 write_SAXS_fit_file(ProfileFitterRatioVolatility self, std::string const & file_name, Profile model_profile, double const chi_square)
1879 return _IMP_saxs.ProfileFitterRatioVolatility_write_SAXS_fit_file(self, file_name, model_profile, chi_square, c, offset)
1882 def get_profile(self):
1883 """get_profile(ProfileFitterRatioVolatility self) -> Profile"""
1884 return _IMP_saxs.ProfileFitterRatioVolatility_get_profile(self)
1886 __swig_destroy__ = _IMP_saxs.delete_ProfileFitterRatioVolatility
1887 __del__ =
lambda self:
None
1888 ProfileFitterRatioVolatility_swigregister = _IMP_saxs.ProfileFitterRatioVolatility_swigregister
1889 ProfileFitterRatioVolatility_swigregister(ProfileFitterRatioVolatility)
1893 """get_module_version() -> std::string const"""
1894 return _IMP_saxs.get_module_version()
1897 """get_example_path(std::string fname) -> std::string"""
1898 return _IMP_saxs.get_example_path(fname)
1901 """get_data_path(std::string fname) -> std::string"""
1902 return _IMP_saxs.get_data_path(fname)
1904 from .
import _version_check
def get_example_path
Return the full path to one of this module's example files.
Various classes to hold sets of particles.
def get_data_path
Return the full path to one of this module's data files.
Make CGAL functionality available to IMP.
def get_module_version
Return the version of this module, as a string.
FormFactorTable * get_default_form_factor_table()
Composable functors to implement scores via compile-time composition.
double get_volume(const BoundingBoxD< D > &bb)
See BoundingBoxD.
Common base class for heavy weight IMP objects.
std::ostream & show(Hierarchy h, std::ostream &out=std::cout)
Print the hierarchy using a given decorator to display each node.
Basic functionality that is expected to be used by a wide variety of IMP users.
General purpose algebraic and geometric methods that are expected to be used by a wide variety of IMP...
Output IMP model data in various file formats.
Functionality for loading, creating, manipulating and scoring atomic structures.
double radius_of_gyration(const Particles &particles)
compute radius_of_gyration
A restraint is a term in an IMP ScoringFunction.