/[escript]/trunk/ripley/src/ripleycpp.cpp
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Contents of /trunk/ripley/src/ripleycpp.cpp

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Revision 4526 - (show annotations)
Mon Sep 2 06:34:25 2013 UTC (6 years ago) by jfenwick
File size: 18182 byte(s)
Single rank rectangle randoms.

1
2 /*****************************************************************************
3 *
4 * Copyright (c) 2003-2013 by University of Queensland
5 * http://www.uq.edu.au
6 *
7 * Primary Business: Queensland, Australia
8 * Licensed under the Open Software License version 3.0
9 * http://www.opensource.org/licenses/osl-3.0.php
10 *
11 * Development until 2012 by Earth Systems Science Computational Center (ESSCC)
12 * Development since 2012 by School of Earth Sciences
13 *
14 *****************************************************************************/
15
16 #include <ripley/Brick.h>
17 #include <ripley/Rectangle.h>
18 #include <esysUtils/esysExceptionTranslator.h>
19
20 #include <boost/python.hpp>
21 #include <boost/python/module.hpp>
22 #include <boost/python/def.hpp>
23 #include <boost/python/detail/defaults_gen.hpp>
24 #include <boost/version.hpp>
25
26 using namespace boost::python;
27
28 namespace ripley {
29
30 escript::Data readBinaryGrid(std::string filename, escript::FunctionSpace fs,
31 const object& pyFirst, const object& pyNum, const object& pyMultiplier,
32 const object& pyShape, double fill, int byteOrder, int dataType)
33 {
34 int dim=fs.getDim();
35 std::vector<int> first(dim), numValues(dim), multiplier(dim), shape;
36
37 if (extract<tuple>(pyFirst).check() || extract<list>(pyFirst).check()) {
38 if (len(pyFirst)==dim) {
39 for (int i=0; i<dim; i++) {
40 first[i]=extract<int>(pyFirst[i]);
41 }
42 } else
43 throw RipleyException("Argument 'first' has wrong length");
44 } else
45 throw RipleyException("Argument 'first' must be a tuple or list");
46
47 if (extract<tuple>(pyNum).check() || extract<list>(pyNum).check()) {
48 if (len(pyNum)==dim) {
49 for (int i=0; i<dim; i++) {
50 numValues[i]=extract<int>(pyNum[i]);
51 }
52 } else
53 throw RipleyException("Argument 'numValues' has wrong length");
54 } else
55 throw RipleyException("Argument 'numValues' must be a tuple or list");
56
57 if (extract<tuple>(pyShape).check() || extract<list>(pyShape).check()) {
58 for (int i=0; i<len(pyShape); i++) {
59 shape.push_back(extract<int>(pyShape[i]));
60 }
61 } else
62 throw RipleyException("Argument 'shape' must be a tuple or list");
63
64 if (extract<tuple>(pyMultiplier).check() || extract<list>(pyMultiplier).check()) {
65 if (len(pyMultiplier)==dim) {
66 for (int i=0; i<dim; i++) {
67 multiplier[i]=extract<int>(pyMultiplier[i]);
68 }
69 } else
70 throw RipleyException("Argument 'multiplier' has wrong length");
71 } else
72 throw RipleyException("Argument 'multiplier' must be a tuple or list");
73
74 const RipleyDomain* dom=dynamic_cast<const RipleyDomain*>(fs.getDomain().get());
75 if (!dom)
76 throw RipleyException("Function space must be on a ripley domain");
77
78
79 escript::Data res(fill, shape, fs, true);
80
81 dom->readBinaryGrid(res, filename, first, numValues, multiplier,
82 byteOrder, dataType);
83 return res;
84 }
85
86 escript::Data readNcGrid(std::string filename, std::string varname,
87 escript::FunctionSpace fs, const object& pyFirst, const object& pyNum,
88 const object& pyMultiplier, const object& pyShape, double fill=0.)
89 {
90 int dim=fs.getDim();
91 std::vector<int> first(dim), numValues(dim), multiplier(dim), shape;
92
93 if (extract<tuple>(pyFirst).check() || extract<list>(pyFirst).check()) {
94 if (len(pyFirst)==dim) {
95 for (int i=0; i<dim; i++) {
96 first[i]=extract<int>(pyFirst[i]);
97 }
98 } else
99 throw RipleyException("Argument 'first' has wrong length");
100 } else
101 throw RipleyException("Argument 'first' must be a tuple or list");
102
103 if (extract<tuple>(pyNum).check() || extract<list>(pyNum).check()) {
104 if (len(pyNum)==dim) {
105 for (int i=0; i<dim; i++) {
106 numValues[i]=extract<int>(pyNum[i]);
107 }
108 } else
109 throw RipleyException("Argument 'numValues' has wrong length");
110 } else
111 throw RipleyException("Argument 'numValues' must be a tuple or list");
112
113 if (extract<tuple>(pyMultiplier).check() || extract<list>(pyMultiplier).check()) {
114 if (len(pyMultiplier)==dim) {
115 for (int i=0; i<dim; i++) {
116 multiplier[i]=extract<int>(pyMultiplier[i]);
117 }
118 } else
119 throw RipleyException("Argument 'multiplier' has wrong length");
120 } else
121 throw RipleyException("Argument 'multiplier' must be a tuple or list");
122
123 if (extract<tuple>(pyShape).check() || extract<list>(pyShape).check()) {
124 for (int i=0; i<len(pyShape); i++) {
125 shape.push_back(extract<int>(pyShape[i]));
126 }
127 } else
128 throw RipleyException("Argument 'shape' must be a tuple or list");
129
130 const RipleyDomain* dom=dynamic_cast<const RipleyDomain*>(fs.getDomain().get());
131 if (!dom)
132 throw RipleyException("Function space must be on a ripley domain");
133
134
135 escript::Data res(fill, shape, fs, true);
136
137 dom->readNcGrid(res, filename, varname, first, numValues, multiplier);
138 return res;
139 }
140
141 // These wrappers are required to make the shared pointers work through the
142 // Python wrapper
143
144 // The double for n? is just to keep python happy when people need to deal with
145 // truediv
146 escript::Domain_ptr _brick(double _n0, double _n1, double _n2, const object& l0,
147 const object& l1, const object& l2, int d0, int d1, int d2)
148 {
149 int n0=static_cast<int>(_n0), n1=static_cast<int>(_n1), n2=static_cast<int>(_n2);
150 double x0=0., x1=1., y0=0., y1=1., z0=0., z1=1.;
151 if (extract<tuple>(l0).check()) {
152 tuple x=extract<tuple>(l0);
153 if (len(x)==2) {
154 x0=extract<double>(x[0]);
155 x1=extract<double>(x[1]);
156 } else
157 throw RipleyException("Argument l0 must be a float or 2-tuple");
158 } else if (extract<double>(l0).check()) {
159 x1=extract<double>(l0);
160 } else
161 throw RipleyException("Argument l0 must be a float or 2-tuple");
162
163 if (extract<tuple>(l1).check()) {
164 tuple y=extract<tuple>(l1);
165 if (len(y)==2) {
166 y0=extract<double>(y[0]);
167 y1=extract<double>(y[1]);
168 } else
169 throw RipleyException("Argument l1 must be a float or 2-tuple");
170 } else if (extract<double>(l1).check()) {
171 y1=extract<double>(l1);
172 } else
173 throw RipleyException("Argument l1 must be a float or 2-tuple");
174
175 if (extract<tuple>(l2).check()) {
176 tuple z=extract<tuple>(l2);
177 if (len(z)==2) {
178 z0=extract<double>(z[0]);
179 z1=extract<double>(z[1]);
180 } else
181 throw RipleyException("Argument l2 must be a float or 2-tuple");
182 } else if (extract<double>(l2).check()) {
183 z1=extract<double>(l2);
184 } else
185 throw RipleyException("Argument l2 must be a float or 2-tuple");
186
187 return escript::Domain_ptr(new Brick(n0,n1,n2, x0,y0,z0, x1,y1,z1, d0,d1,d2));
188 }
189
190 const int _q[]={0x61686969,0x746c4144,0x79616e43};
191 escript::Domain_ptr _rectangle(double _n0, double _n1, const object& l0,
192 const object& l1, int d0, int d1)
193 {
194 int n0=static_cast<int>(_n0), n1=static_cast<int>(_n1);
195 double x0=0., x1=1., y0=0., y1=1.;
196 if (extract<tuple>(l0).check()) {
197 tuple x=extract<tuple>(l0);
198 if (len(x)==2) {
199 x0=extract<double>(x[0]);
200 x1=extract<double>(x[1]);
201 } else
202 throw RipleyException("Argument l0 must be a float or 2-tuple");
203 } else if (extract<double>(l0).check()) {
204 x1=extract<double>(l0);
205 } else
206 throw RipleyException("Argument l0 must be a float or 2-tuple");
207
208 if (extract<tuple>(l1).check()) {
209 tuple y=extract<tuple>(l1);
210 if (len(y)==2) {
211 y0=extract<double>(y[0]);
212 y1=extract<double>(y[1]);
213 } else
214 throw RipleyException("Argument l1 must be a float or 2-tuple");
215 } else if (extract<double>(l1).check()) {
216 y1=extract<double>(l1);
217 } else
218 throw RipleyException("Argument l1 must be a float or 2-tuple");
219
220 return escript::Domain_ptr(new Rectangle(n0,n1, x0,y0, x1,y1, d0,d1));
221 }
222 std::string _who(){int a[]={_q[0]^42,_q[1]^42,_q[2]^42,0};return (char*)&a[0];}
223
224 } // end of namespace ripley
225
226
227 BOOST_PYTHON_MODULE(ripleycpp)
228 {
229 // This feature was added in boost v1.34
230 #if ((BOOST_VERSION/100)%1000 > 34) || (BOOST_VERSION/100000 >1)
231 // params are: bool show_user_defined, bool show_py_signatures, bool show_cpp_signatures
232 docstring_options docopt(true, true, false);
233 #endif
234
235 register_exception_translator<ripley::RipleyException>(&(esysUtils::esysExceptionTranslator));
236
237 scope().attr("__doc__") = "To use this module, please import esys.ripley";
238 scope().attr("BYTEORDER_NATIVE") = (int)ripley::BYTEORDER_NATIVE;
239 scope().attr("BYTEORDER_LITTLE_ENDIAN") = (int)ripley::BYTEORDER_LITTLE_ENDIAN;
240 scope().attr("BYTEORDER_BIG_ENDIAN") = (int)ripley::BYTEORDER_BIG_ENDIAN;
241 scope().attr("DATATYPE_INT32") = (int)ripley::DATATYPE_INT32;
242 scope().attr("DATATYPE_FLOAT32") = (int)ripley::DATATYPE_FLOAT32;
243 scope().attr("DATATYPE_FLOAT64") = (int)ripley::DATATYPE_FLOAT64;
244
245 def("Brick", ripley::_brick, (arg("n0"),arg("n1"),arg("n2"),arg("l0")=1.0,arg("l1")=1.0,arg("l2")=1.0,arg("d0")=-1,arg("d1")=-1,arg("d2")=-1),
246 "Creates a hexagonal mesh with n0 x n1 x n2 elements over the brick [0,l0] x [0,l1] x [0,l2].\n\n"
247 ":param n0: number of elements in direction 0\n:type n0: ``int``\n"
248 ":param n1: number of elements in direction 1\n:type n1: ``int``\n"
249 ":param n2: number of elements in direction 2\n:type n2: ``int``\n"
250 ":param l0: length of side 0 or coordinate range of side 0\n:type l0: ``float`` or ``tuple``\n"
251 ":param l1: length of side 1 or coordinate range of side 1\n:type l1: ``float`` or ``tuple``\n"
252 ":param l2: length of side 2 or coordinate range of side 2\n:type l2: ``float`` or ``tuple``\n"
253 ":param d0: number of subdivisions in direction 0\n:type d0: ``int``\n"
254 ":param d1: number of subdivisions in direction 1\n:type d1: ``int``\n"
255 ":param d2: number of subdivisions in direction 2\n:type d2: ``int``");
256
257 def("Rectangle", ripley::_rectangle, (arg("n0"),arg("n1"),arg("l0")=1.0,arg("l1")=1.0,arg("d0")=-1,arg("d1")=-1),
258 "Creates a rectangular mesh with n0 x n1 elements over the rectangle [0,l0] x [0,l1].\n\n"
259 ":param n0: number of elements in direction 0\n:type n0: ``int``\n"
260 ":param n1: number of elements in direction 1\n:type n1: ``int``\n"
261 ":param l0: length of side 0 or coordinate range of side 0\n:type l0: ``float`` or ``tuple``\n"
262 ":param l1: length of side 1 or coordinate range of side 1\n:type l1: ``float`` or ``tuple``\n"
263 ":param d0: number of subdivisions in direction 0\n:type d0: ``int``\n"
264 ":param d1: number of subdivisions in direction 1\n:type d1: ``int``");
265 def("_theculprit_", ripley::_who);
266
267 def("_readBinaryGrid", &ripley::readBinaryGrid, (arg("filename"), arg("functionspace"), arg("first"), arg("numValues"), arg("multiplier"), arg("shape"), arg("fill")=0., arg("byteOrder"), arg("dataType")));
268
269 def("_readNcGrid", &ripley::readNcGrid, (arg("filename"), arg("varname"), arg("functionspace"), arg("first"), arg("numValues"), arg("multiplier"), arg("shape"), arg("fill")=0.));
270
271 class_<ripley::RipleyDomain, bases<escript::AbstractContinuousDomain>, boost::noncopyable >
272 ("RipleyDomain", "", no_init)
273 .def("print_mesh_info", &ripley::RipleyDomain::Print_Mesh_Info, (arg("full")=false),
274 "Prints out a summary about the mesh.\n"
275 ":param full: whether to output additional data\n:type full: ``bool``")
276 .def("writeBinaryGrid", &ripley::RipleyDomain::writeBinaryGrid)
277
278 .def("dump", &ripley::RipleyDomain::dump, args("filename"),
279 "Dumps the mesh to a file with the given name.")
280 .def("getGridParameters", &ripley::RipleyDomain::getGridParameters,
281 "Returns the tuple (origin, spacing, elements) where the entries are tuples:\n"
282 "``origin``=the coordinates of the domain's global origin,\n"
283 "``spacing``=the element size (=node spacing) of the domain,\n"
284 "``elements``=the global number of elements in all dimensions\n\n"
285 ":rtype: ``tuple``")
286 .def("getDescription", &ripley::RipleyDomain::getDescription,
287 ":return: a description for this domain\n:rtype: ``string``")
288 .def("getDim", &ripley::RipleyDomain::getDim, ":rtype: ``int``")
289 .def("getDataShape", &ripley::RipleyDomain::getDataShape, args("functionSpaceCode"),
290 ":return: a pair (dps, ns) where dps=the number of data points per sample, and ns=the number of samples\n:rtype: ``tuple``")
291 .def("getNumDataPointsGlobal", &ripley::RipleyDomain::getNumDataPointsGlobal,
292 ":return: the number of data points summed across all MPI processes\n"
293 ":rtype: ``int``")
294 .def("addPDEToSystem",&ripley::RipleyDomain::addPDEToSystem,
295 args("mat", "rhs", "A", "B", "C", "D", "X", "Y", "d", "y", "d_contact", "y_contact"),
296 "adds a PDE onto the stiffness matrix mat and a rhs\n\n"
297 ":param mat:\n:type mat: `OperatorAdapter`\n:param rhs:\n:type rhs: `Data`\n"
298 ":param A:\n:type A: `Data`\n"
299 ":param B:\n:type B: `Data`\n"
300 ":param C:\n:type C: `Data`\n"
301 ":param D:\n:type D: `Data`\n"
302 ":param X:\n:type X: `Data`\n"
303 ":param Y:\n:type Y: `Data`\n"
304 ":param d:\n:type d: `Data`\n"
305 ":param d_contact:\n:type d_contact: `Data`\n"
306 ":param y_contact:\n:type y_contact: `Data`"
307 )
308 .def("addPDEToRHS",&ripley::RipleyDomain::addPDEToRHS,
309 args("rhs", "X", "Y", "y", "y_contact"),
310 "adds a PDE onto the stiffness matrix mat and a rhs\n\n"
311 ":param rhs:\n:type rhs: `Data`\n"
312 ":param X:\n:type X: `Data`\n"
313 ":param Y:\n:type Y: `Data`\n"
314 ":param y:\n:type y: `Data`\n"
315 ":param y_contact:\n:type y_contact: `Data`"
316 )
317 .def("addPDEToTransportProblem",&ripley::RipleyDomain::addPDEToTransportProblem,
318 args( "tp", "source", "M", "A", "B", "C", "D", "X", "Y", "d", "y", "d_contact", "y_contact"),
319 ":param tp:\n:type tp: `TransportProblemAdapter`\n"
320 ":param source:\n:type source: `Data`\n"
321 ":param M:\n:type M: `Data`\n"
322 ":param A:\n:type A: `Data`\n"
323 ":param B:\n:type B: `Data`\n"
324 ":param C:\n:type C: `Data`\n"
325 ":param D:\n:type D: `Data`\n"
326 ":param X:\n:type X: `Data`\n"
327 ":param Y:\n:type Y: `Data`\n"
328 ":param d:\n:type d: `Data`\n"
329 ":param y:\n:type y: `Data`\n"
330 ":param d_contact:\n:type d_contact: `Data`\n"
331 ":param y_contact:\n:type y_contact: `Data`"
332 )
333 .def("newOperator",&ripley::RipleyDomain::newSystemMatrix,
334 args("row_blocksize", "row_functionspace", "column_blocksize", "column_functionspace", "type"),
335 "creates a SystemMatrixAdapter stiffness matrix and initializes it with zeros\n\n"
336 ":param row_blocksize:\n:type row_blocksize: ``int``\n"
337 ":param row_functionspace:\n:type row_functionspace: `FunctionSpace`\n"
338 ":param column_blocksize:\n:type column_blocksize: ``int``\n"
339 ":param column_functionspace:\n:type column_functionspace: `FunctionSpace`\n"
340 ":param type:\n:type type: ``int``"
341 )
342 .def("newTransportProblem",&ripley::RipleyDomain::newTransportProblem,
343 args("theta", "blocksize", "functionspace", "type"),
344 "creates a TransportProblemAdapter\n\n"
345 ":param theta:\n:type theta: ``float``\n"
346 ":param blocksize:\n:type blocksize: ``int``\n"
347 ":param functionspace:\n:type functionspace: `FunctionSpace`\n"
348 ":param type:\n:type type: ``int``"
349 )
350 .def("getSystemMatrixTypeId",&ripley::RipleyDomain::getSystemMatrixTypeId,
351 args("solver", "preconditioner", "package", "symmetry"),
352 ":return: the identifier of the matrix type to be used for the global stiffness matrix when a particular solver, package, preconditioner, and symmetric matrix is used.\n"
353 ":rtype: ``int``\n"
354 ":param solver:\n:type solver: ``int``\n"
355 ":param preconditioner:\n:type preconditioner: ``int``\n"
356 ":param package:\n:type package: ``int``\n"
357 ":param symmetry:\n:type symmetry: ``int``"
358 )
359 .def("getTransportTypeId",&ripley::RipleyDomain::getTransportTypeId,
360 args("solver", "preconditioner", "package", "symmetry"),
361 ":return: the identifier of the transport problem type to be used when a particular solver, preconditioner, package and symmetric matrix is used.\n"
362 ":rtype: ``int``\n"
363 ":param solver:\n:type solver: ``int``\n"
364 ":param preconditioner:\n:type preconditioner: ``int``\n"
365 ":param package:\n:type package: ``int``\n"
366 ":param symmetry:\n:type symmetry: ``int``"
367 )
368 .def("getX",&ripley::RipleyDomain::getX, ":return: locations in the FEM nodes\n\n"
369 ":rtype: `Data`")
370 .def("getNormal",&ripley::RipleyDomain::getNormal,
371 ":return: boundary normals at the quadrature point on the face elements\n"
372 ":rtype: `Data`")
373 .def("getSize",&ripley::RipleyDomain::getSize,":return: the element size\n"
374 ":rtype: `Data`")
375 .def("setTagMap",&ripley::RipleyDomain::setTagMap,args("name","tag"),
376 "Give a tag number a name.\n\n:param name: Name for the tag\n:type name: ``string``\n"
377 ":param tag: numeric id\n:type tag: ``int``\n:note: Tag names must be unique within a domain")
378 .def("getTag",&ripley::RipleyDomain::getTag,args("name"),":return: tag id for "
379 "``name``\n:rtype: ``string``")
380 .def("isValidTagName",&ripley::RipleyDomain::isValidTagName,args("name"),
381 ":return: True if ``name`` corresponds to a tag, otherwise False\n:rtype: ``bool``")
382 .def("showTagNames",&ripley::RipleyDomain::showTagNames,":return: A space separated list of tag names\n:rtype: ``string``")
383 .def("getMPISize",&ripley::RipleyDomain::getMPISize,":return: the number of processes used for this `Domain`\n:rtype: ``int``")
384 .def("getMPIRank",&ripley::RipleyDomain::getMPIRank,":return: the rank of this process\n:rtype: ``int``")
385 .def("MPIBarrier",&ripley::RipleyDomain::MPIBarrier,"Wait until all processes have reached this point")
386 .def("onMasterProcessor",&ripley::RipleyDomain::onMasterProcessor,":return: True if this code is executing on the master process\n:rtype: `bool`");
387
388 class_<ripley::Brick, bases<ripley::RipleyDomain> >("RipleyBrick", "", no_init);
389 class_<ripley::Rectangle, bases<ripley::RipleyDomain> >("RipleyRectangle", "", no_init)
390 .def("randomFill", &ripley::Rectangle::randomFill);
391 }
392

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