/[escript]/trunk/escript/src/DataConstant.cpp
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Contents of /trunk/escript/src/DataConstant.cpp

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Revision 1872 - (show annotations)
Mon Oct 13 00:18:55 2008 UTC (10 years, 10 months ago) by jfenwick
File size: 12786 byte(s)
Closing the moreshared branch

1
2 /*******************************************************
3 *
4 * Copyright (c) 2003-2008 by University of Queensland
5 * Earth Systems Science Computational Center (ESSCC)
6 * http://www.uq.edu.au/esscc
7 *
8 * Primary Business: Queensland, Australia
9 * Licensed under the Open Software License version 3.0
10 * http://www.opensource.org/licenses/osl-3.0.php
11 *
12 *******************************************************/
13
14
15 #include "Data.h"
16 #include "DataConstant.h"
17 #include "DataException.h"
18 #include "esysUtils/EsysAssert.h"
19
20 #include <iostream>
21 #include <boost/python/extract.hpp>
22 #ifdef USE_NETCDF
23 #include <netcdfcpp.h>
24 #endif
25 #ifdef PASO_MPI
26 #include <mpi.h>
27 #endif
28
29 #include <boost/python/extract.hpp>
30 #include "DataMaths.h"
31
32 using namespace std;
33 using namespace boost::python;
34
35 namespace escript {
36
37 DataConstant::DataConstant(const boost::python::numeric::array& value,
38 const FunctionSpace& what)
39 : DataAbstract(what,DataTypes::shapeFromNumArray(value))
40 {
41 // // extract the shape of the numarray
42 // DataTypes::ShapeType tempShape;
43 // for (int i=0; i < value.getrank(); i++) {
44 // tempShape.push_back(extract<int>(value.getshape()[i]));
45 // }
46
47 // get the space for the data vector
48 // int len = getNoValues();
49 // DataVector temp_data(len, 0.0, len);
50 // DataArrayView temp_dataView(temp_data, tempShape);
51 // temp_dataView.copy(value);
52
53 m_data.copyFromNumArray(value);
54 //
55
56 // copy the data in the correct format
57 // m_data=temp_data;
58 //
59 // create the view of the data
60 // DataArrayView tempView(m_data,temp_dataView.getShape());
61 // setPointDataView(tempView);
62 }
63
64 // DataConstant::DataConstant(const DataArrayView& value,
65 // const FunctionSpace& what)
66 // : DataAbstract(what)
67 // {
68 // //
69 // // copy the data in the correct format
70 // m_data=value.getData();
71 // //
72 // // create the view of the data
73 // DataArrayView tempView(m_data,value.getShape());
74 // setPointDataView(tempView);
75 // }
76
77 DataConstant::DataConstant(const DataConstant& other)
78 : DataAbstract(other.getFunctionSpace(),other.getShape())
79 { //
80 // copy the data in the correct format
81 m_data=other.m_data;
82 //
83 // // create the view of the data
84 // DataArrayView tempView(m_data,other.getPointDataView().getShape());
85 // setPointDataView(tempView);
86 }
87
88 DataConstant::DataConstant(const DataConstant& other,
89 const DataTypes::RegionType& region)
90 : DataAbstract(other.getFunctionSpace(),DataTypes::getResultSliceShape(region))
91 {
92 //
93 // get the shape of the slice to copy from
94 // DataTypes::ShapeType shape(DataTypes::getResultSliceShape(region));
95 //
96 // allocate space for this new DataConstant's data
97 int len = getNoValues();
98 m_data.resize(len,0.,len);
99 //
100 // create a view of the data with the correct shape
101 // DataArrayView tempView(m_data,shape);
102 DataTypes::RegionLoopRangeType region_loop_range=DataTypes::getSliceRegionLoopRange(region);
103 //
104 // load the view with the data from the slice
105 // tempView.copySlice(other.getPointDataView(),region_loop_range);
106 DataTypes::copySlice(m_data,getShape(),0,other.getVector(),other.getShape(),0,region_loop_range);
107 // setPointDataView(tempView);
108 }
109
110 DataConstant::DataConstant(const FunctionSpace& what,
111 const DataTypes::ShapeType &shape,
112 const DataTypes::ValueType &data)
113 : DataAbstract(what,shape)
114 {
115 //
116 // copy the data in the correct format
117 m_data=data;
118 //
119 // create the view of the data
120 // DataArrayView tempView(m_data,shape);
121 // setPointDataView(tempView);
122 }
123
124 string
125 DataConstant::toString() const
126 {
127 return DataTypes::pointToString(m_data,getShape(),0,"");
128 }
129
130
131 DataAbstract*
132 DataConstant::deepCopy()
133 {
134 return new DataConstant(*this);
135 }
136
137
138 DataTypes::ValueType::size_type
139 DataConstant::getPointOffset(int sampleNo,
140 int dataPointNo) const
141 {
142 EsysAssert((validSamplePointNo(dataPointNo) && validSampleNo(sampleNo)),
143 "Invalid index, sampleNo: " << sampleNo << " dataPointNo: " << dataPointNo);
144 //
145 // Whatever the coord's always return the same value as this is constant data.
146 return 0;
147 }
148
149 DataTypes::ValueType::size_type
150 DataConstant::getLength() const
151 {
152 return m_data.size();
153 }
154
155 // DataArrayView
156 // DataConstant::getDataPoint(int sampleNo,
157 // int dataPointNo)
158 // {
159 // EsysAssert((validSamplePointNo(dataPointNo) && validSampleNo(sampleNo)),
160 // "Invalid index, sampleNo: " << sampleNo << " dataPointNo: " << dataPointNo);
161 // //
162 // // Whatever the coord's always return the same value as this is constant data.
163 // return getPointDataView();
164 // }
165
166 DataAbstract*
167 DataConstant::getSlice(const DataTypes::RegionType& region) const
168 {
169 return new DataConstant(*this,region);
170 }
171
172 void
173 DataConstant::setSlice(const DataAbstract* value,
174 const DataTypes::RegionType& region)
175 {
176 const DataConstant* tempDataConst=dynamic_cast<const DataConstant*>(value);
177 if (tempDataConst==0) {
178 throw DataException("Programming error - casting to DataConstant.");
179 }
180 //
181 DataTypes::ShapeType shape(DataTypes::getResultSliceShape(region));
182 DataTypes::RegionLoopRangeType region_loop_range=DataTypes::getSliceRegionLoopRange(region);
183 //
184 // check shape:
185 if (getRank()!=region.size()) {
186 throw DataException("Error - Invalid slice region.");
187 }
188 if (getRank()>0 && !DataTypes::checkShape(value->getShape(),shape)) {
189 throw DataException (DataTypes::createShapeErrorMessage(
190 "Error - Couldn't copy slice due to shape mismatch.",shape,value->getShape()));
191 }
192 // getPointDataView().copySliceFrom(tempDataConst->getPointDataView(),region_loop_range);
193 DataTypes::copySliceFrom(m_data,getShape(),0,tempDataConst->getVector(), tempDataConst->getShape(),0,region_loop_range);
194 }
195
196
197
198 void
199 DataConstant::symmetric(DataAbstract* ev)
200 {
201 DataConstant* temp_ev=dynamic_cast<DataConstant*>(ev);
202 if (temp_ev==0) {
203 throw DataException("Error - DataConstant::symmetric: casting to DataConstant failed (propably a programming error).");
204 }
205 /* DataArrayView& thisView=getPointDataView();
206 DataArrayView& evView=ev->getPointDataView();*/
207 DataMaths::symmetric(m_data,getShape(),0,temp_ev->getVector(), temp_ev->getShape(),0);
208 }
209
210 void
211 DataConstant::nonsymmetric(DataAbstract* ev)
212 {
213 DataConstant* temp_ev=dynamic_cast<DataConstant*>(ev);
214 if (temp_ev==0) {
215 throw DataException("Error - DataConstant::nonsymmetric: casting to DataConstant failed (propably a programming error).");
216 }
217 /* DataArrayView& thisView=getPointDataView();
218 DataArrayView& evView=ev->getPointDataView();*/
219 DataMaths::nonsymmetric(m_data,getShape(),0,temp_ev->getVector(), temp_ev->getShape(),0);
220 }
221
222 void
223 DataConstant::trace(DataAbstract* ev, int axis_offset)
224 {
225 DataConstant* temp_ev=dynamic_cast<DataConstant*>(ev);
226 if (temp_ev==0) {
227 throw DataException("Error - DataConstant::trace: casting to DataConstant failed (propably a programming error).");
228 }
229 /* DataArrayView& thisView=getPointDataView();
230 DataArrayView& evView=ev->getPointDataView();*/
231 ValueType& evVec=temp_ev->getVector();
232 const ShapeType& evShape=temp_ev->getShape();
233 DataMaths::trace(m_data,getShape(),0,evVec,evShape,0,axis_offset);
234 }
235
236 void
237 DataConstant::swapaxes(DataAbstract* ev, int axis0, int axis1)
238 {
239 DataConstant* temp_ev=dynamic_cast<DataConstant*>(ev);
240 if (temp_ev==0) {
241 throw DataException("Error - DataConstant::swapaxes: casting to DataConstant failed (propably a programming error).");
242 }
243 // DataArrayView& thisView=getPointDataView();
244 // DataArrayView& evView=ev->getPointDataView();
245 DataMaths::swapaxes(m_data,getShape(),0,temp_ev->getVector(), temp_ev->getShape(),0,axis0,axis1);
246 }
247
248 void
249 DataConstant::transpose(DataAbstract* ev, int axis_offset)
250 {
251 DataConstant* temp_ev=dynamic_cast<DataConstant*>(ev);
252 if (temp_ev==0) {
253 throw DataException("Error - DataConstant::transpose: casting to DataConstant failed (propably a programming error).");
254 }
255 /* DataArrayView& thisView=getPointDataView();
256 DataArrayView& evView=ev->getPointDataView();*/
257 DataMaths::transpose(m_data, getShape(),0, temp_ev->getVector(),temp_ev->getShape(),0,axis_offset);
258 }
259
260 void
261 DataConstant::eigenvalues(DataAbstract* ev)
262 {
263 DataConstant* temp_ev=dynamic_cast<DataConstant*>(ev);
264 if (temp_ev==0) {
265 throw DataException("Error - DataConstant::eigenvalues: casting to DataConstant failed (propably a programming error).");
266 }
267 /* DataArrayView& thisView=getPointDataView();
268 DataArrayView& evView=ev->getPointDataView();*/
269 DataMaths::eigenvalues(m_data,getShape(),0,temp_ev->getVector(), temp_ev->getShape(),0);
270 }
271 void
272 DataConstant::eigenvalues_and_eigenvectors(DataAbstract* ev,DataAbstract* V,const double tol)
273 {
274 DataConstant* temp_ev=dynamic_cast<DataConstant*>(ev);
275 if (temp_ev==0) {
276 throw DataException("Error - DataConstant::eigenvalues_and_eigenvectors: casting to DataConstant failed (propably a programming error).");
277 }
278 DataConstant* temp_V=dynamic_cast<DataConstant*>(V);
279 if (temp_V==0) {
280 throw DataException("Error - DataConstant::eigenvalues_and_eigenvectors: casting to DataConstant failed (propably a programming error).");
281 }
282 // DataArrayView thisView=getPointDataView();
283 // DataArrayView evView=ev->getPointDataView();
284 // DataArrayView VView=V->getPointDataView();
285
286 DataMaths::eigenvalues_and_eigenvectors(m_data, getShape(),0,temp_ev->getVector(), temp_ev->getShape(),0,temp_V->getVector(), temp_V->getShape(),0,tol);
287 }
288
289 void
290 DataConstant::setToZero()
291 {
292 DataTypes::ValueType::size_type n=m_data.size();
293 for (int i=0; i<n ;++i) m_data[i]=0.;
294 }
295
296 void
297 DataConstant::dump(const std::string fileName) const
298 {
299 #ifdef USE_NETCDF
300 const NcDim* ncdims[DataTypes::maxRank];
301 NcVar* var;
302 int rank = getRank();
303 int type= getFunctionSpace().getTypeCode();
304 int ndims =0;
305 long dims[DataTypes::maxRank];
306 const double* d_ptr=&(m_data[0]);
307 DataTypes::ShapeType shape = getShape();
308 int mpi_iam=getFunctionSpace().getDomain()->getMPIRank();
309 int mpi_num=getFunctionSpace().getDomain()->getMPISize();
310 #ifdef PASO_MPI
311 MPI_Status status;
312 #endif
313
314 #ifdef PASO_MPI
315 /* Serialize NetCDF I/O */
316 if (mpi_iam>0) MPI_Recv(&ndims, 0, MPI_INT, mpi_iam-1, 81802, MPI_COMM_WORLD, &status);
317 #endif
318
319 // netCDF error handler
320 NcError err(NcError::verbose_nonfatal);
321 // Create the file.
322 char *newFileName = Escript_MPI_appendRankToFileName(fileName.c_str(), mpi_num, mpi_iam);
323 NcFile dataFile(newFileName, NcFile::Replace);
324 // check if writing was successful
325 if (!dataFile.is_valid())
326 throw DataException("Error - DataConstant:: opening of netCDF file for output failed.");
327 if (!dataFile.add_att("type_id",0) )
328 throw DataException("Error - DataConstant:: appending data type to netCDF file failed.");
329 if (!dataFile.add_att("rank",rank) )
330 throw DataException("Error - DataConstant:: appending rank attribute to netCDF file failed.");
331 if (!dataFile.add_att("function_space_type",type))
332 throw DataException("Error - DataConstant:: appending function space attribute to netCDF file failed.");
333
334 if (rank == 0) {
335 if( ! (ncdims[0] = dataFile.add_dim("l", 1)) )
336 throw DataException("Error - DataConstant:: appending ncdimension 0 to netCDF file failed.");
337 dims[0]=1,
338 ndims=1;
339 } else {
340 ndims=rank;
341 dims[0]=shape[0];
342 if (! (ncdims[0] = dataFile.add_dim("d0",shape[0])) )
343 throw DataException("Error - DataConstant:: appending ncdimension 0 to netCDF file failed.");
344 if ( rank >1 ) {
345 dims[1]=shape[1];
346 if (! (ncdims[1] = dataFile.add_dim("d1",shape[1])) )
347 throw DataException("Error - DataConstant:: appending ncdimension 1 to netCDF file failed.");
348 }
349 if ( rank >2 ) {
350 dims[2]=shape[2];
351 if (! (ncdims[2] = dataFile.add_dim("d2", shape[2])) )
352 throw DataException("Error - DataConstant:: appending ncdimension 2 to netCDF file failed.");
353 }
354 if ( rank >3 ) {
355 dims[3]=shape[3];
356 if (! (ncdims[3] = dataFile.add_dim("d3", shape[3])) )
357 throw DataException("Error - DataConstant:: appending ncdimension 3 to netCDF file failed.");
358 }
359 }
360
361 if (! ( var = dataFile.add_var("data", ncDouble, ndims, ncdims)) )
362 throw DataException("Error - DataConstant:: appending variable to netCDF file failed.");
363 if (! (var->put(d_ptr,dims)) )
364 throw DataException("Error - DataConstant:: copy data to netCDF buffer failed.");
365 #ifdef PASO_MPI
366 if (mpi_iam<mpi_num-1) MPI_Send(&ndims, 0, MPI_INT, mpi_iam+1, 81802, MPI_COMM_WORLD);
367 #endif
368 #else
369 throw DataException("Error - DataConstant:: dump is not configured with netCDF. Please contact your installation manager.");
370 #endif
371 }
372
373 } // end of namespace

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