/[escript]/trunk/escript/src/DataExpanded.cpp
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trunk/esys2/escript/src/Data/DataExpanded.cpp revision 97 by jgs, Tue Dec 14 05:39:33 2004 UTC trunk/escript/src/DataExpanded.cpp revision 1137 by gross, Thu May 10 08:11:31 2007 UTC
# Line 1  Line 1 
1  // $Id$  // $Id$
2  /*  /*
3   ******************************************************************************   ************************************************************
4   *                                                                            *   *          Copyright 2006 by ACcESS MNRF                   *
5   *       COPYRIGHT  ACcESS 2004 -  All Rights Reserved                        *   *                                                          *
6   *                                                                            *   *              http://www.access.edu.au                    *
7   * This software is the property of ACcESS. No part of this code              *   *       Primary Business: Queensland, Australia            *
8   * may be copied in any form or by any means without the expressed written    *   *  Licensed under the Open Software License version 3.0    *
9   * consent of ACcESS.  Copying, use or modification of this software          *   *     http://www.opensource.org/licenses/osl-3.0.php       *
10   * by any unauthorised person is illegal unless that person has a software    *   *                                                          *
11   * license agreement with ACcESS.                                             *   ************************************************************
  *                                                                            *  
  ******************************************************************************  
12  */  */
13    
14  #include "escript/Data/DataException.h"  #include "DataExpanded.h"
15  #include "escript/Data/DataExpanded.h"  #include "DataException.h"
16  #include "escript/Data/DataConstant.h"  #include "DataConstant.h"
17  #include "escript/Data/DataTagged.h"  #include "DataTagged.h"
18  #include "escript/Data/DataArrayView.h"  #ifdef USE_NETCDF
19    #include "netcdfcpp.h"
20    #endif
21    
22  #include <boost/python/extract.hpp>  #include <boost/python/extract.hpp>
23    
 #include <iostream>  
   
24  using namespace std;  using namespace std;
25  using namespace boost::python;  using namespace boost::python;
26  using namespace boost;  using namespace boost;
# Line 35  DataExpanded::DataExpanded(const boost:: Line 33  DataExpanded::DataExpanded(const boost::
33  {  {
34    DataArrayView::ShapeType tempShape;    DataArrayView::ShapeType tempShape;
35    //    //
36    // extract the shape from the python array    // extract the shape of the python numarray
37    for (int i=0; i<value.getrank(); ++i) {    for (int i=0; i<value.getrank(); i++) {
     //cout << extract<int>(value.getshape()[i]) << endl;  
38      tempShape.push_back(extract<int>(value.getshape()[i]));      tempShape.push_back(extract<int>(value.getshape()[i]));
39    }    }
40      //
41      // initialise the data array for this object
42    initialise(tempShape,what.getNumSamples(),what.getNumDPPSample());    initialise(tempShape,what.getNumSamples(),what.getNumDPPSample());
43    //    //
44    // copy the given value to every data point    // copy the given value to every data point
# Line 49  DataExpanded::DataExpanded(const boost:: Line 48  DataExpanded::DataExpanded(const boost::
48  DataExpanded::DataExpanded(const DataExpanded& other)  DataExpanded::DataExpanded(const DataExpanded& other)
49    : DataAbstract(other.getFunctionSpace()),    : DataAbstract(other.getFunctionSpace()),
50    m_data(other.m_data)    m_data(other.m_data)
51  {      {
52    //    //
53    // create the view for the data    // create the view for the data
54    DataArrayView temp(m_data.getData(),other.getPointDataView().getShape());    DataArrayView temp(m_data.getData(),other.getPointDataView().getShape());
# Line 58  DataExpanded::DataExpanded(const DataExp Line 57  DataExpanded::DataExpanded(const DataExp
57    
58  DataExpanded::DataExpanded(const DataConstant& other)  DataExpanded::DataExpanded(const DataConstant& other)
59    : DataAbstract(other.getFunctionSpace())    : DataAbstract(other.getFunctionSpace())
60  {      {
61      //
62      // initialise the data array for this object
63    initialise(other.getPointDataView().getShape(),other.getNumSamples(),other.getNumDPPSample());    initialise(other.getPointDataView().getShape(),other.getNumSamples(),other.getNumDPPSample());
64    //    //
65    // DataConstant only has one value    // DataConstant only has one value, copy this to every data point
66    copy(other.getPointDataView());    copy(other.getPointDataView());
67  }  }
68    
69  DataExpanded::DataExpanded(const DataTagged& other)  DataExpanded::DataExpanded(const DataTagged& other)
70    : DataAbstract(other.getFunctionSpace())    : DataAbstract(other.getFunctionSpace())
71  {      {
72      //
73      // initialise the data array for this object
74    initialise(other.getPointDataView().getShape(),other.getNumSamples(),other.getNumDPPSample());    initialise(other.getPointDataView().getShape(),other.getNumSamples(),other.getNumDPPSample());
75      //
76      // for each data point in this object, extract and copy the corresponding data
77      // value from the given DataTagged object
78    int i,j;    int i,j;
79    DataArrayView::ValueType::size_type numRows=m_data.getNumRows();    DataArrayView::ValueType::size_type numRows=m_data.getNumRows();
80    DataArrayView::ValueType::size_type numCols=m_data.getNumCols();    DataArrayView::ValueType::size_type numCols=m_data.getNumCols();
81  #pragma omp parallel for private(i,j) schedule(static)    #pragma omp parallel for private(i,j) schedule(static)
82    for (i=0;i<numRows;++i) {    for (i=0;i<numRows;i++) {
83      for (j=0;j<numCols;++j) {      for (j=0;j<numCols;j++) {
84        try {        try {
85          getPointDataView().copy(getPointOffset(i,j), other.getPointDataView(), other.getPointOffset(i,j));          getPointDataView().copy(getPointOffset(i,j),
86                                    other.getPointDataView(),
87                                    other.getPointOffset(i,j));
88        }        }
89        catch (std::exception& e) {        catch (std::exception& e) {
90          cout << e.what() << endl;          cout << e.what() << endl;
# Line 97  DataExpanded::DataExpanded(const DataExp Line 105  DataExpanded::DataExpanded(const DataExp
105    initialise(shape,other.getNumSamples(),other.getNumDPPSample());    initialise(shape,other.getNumSamples(),other.getNumDPPSample());
106    //    //
107    // copy the data    // copy the data
108      DataArrayView::RegionLoopRangeType region_loop_range=getSliceRegionLoopRange(region);
109    DataArrayView::ValueType::size_type numRows=m_data.getNumRows();    DataArrayView::ValueType::size_type numRows=m_data.getNumRows();
110    DataArrayView::ValueType::size_type numCols=m_data.getNumCols();    DataArrayView::ValueType::size_type numCols=m_data.getNumCols();
111    int i,j;    int i,j;
112  #pragma omp parallel for private(i,j) schedule(static)    #pragma omp parallel for private(i,j) schedule(static)
113    for (i=0;i<numRows;++i) {    for (i=0;i<numRows;i++) {
114      for (j=0;j<numCols;++j) {      for (j=0;j<numCols;j++) {
115        try {        try {
116          getPointDataView().copySlice(getPointOffset(i,j),other.getPointDataView(),other.getPointOffset(i,j),region);          getPointDataView().copySlice(getPointOffset(i,j),
117                                         other.getPointDataView(),
118                                         other.getPointOffset(i,j),
119                                         region_loop_range);
120        }        }
121        catch (std::exception& e) {        catch (std::exception& e) {
122          cout << e.what() << endl;          cout << e.what() << endl;
# Line 117  DataExpanded::DataExpanded(const DataArr Line 129  DataExpanded::DataExpanded(const DataArr
129                             const FunctionSpace& what)                             const FunctionSpace& what)
130    : DataAbstract(what)    : DataAbstract(what)
131  {  {
132      //
133      // get the shape of the given data value
134    DataArrayView::ShapeType tempShape=value.getShape();    DataArrayView::ShapeType tempShape=value.getShape();
135      //
136      // initialise this Data object to the shape of the given data value
137    initialise(tempShape,what.getNumSamples(),what.getNumDPPSample());    initialise(tempShape,what.getNumSamples(),what.getNumDPPSample());
138      //
139      // copy the given value to every data point
140    copy(value);    copy(value);
141  }  }
142    
143  DataExpanded::~DataExpanded()  DataExpanded::DataExpanded(const FunctionSpace& what,
144                               const DataArrayView::ShapeType &shape,
145                               const DataArrayView::ValueType &data)
146      : DataAbstract(what)
147  {  {
148      //
149      // create the view of the data
150      initialise(shape,what.getNumSamples(),what.getNumDPPSample());
151      //
152      // copy the data in the correct format
153      m_data.getData()=data;
154  }  }
155    
156  void  DataExpanded::~DataExpanded()
 DataExpanded::reshapeDataPoint(const DataArrayView::ShapeType& shape)  
157  {  {
   //  
   // reshape a rank zero data point  
   if (getPointDataView().getRank()!=0) {  
     stringstream temp;  
     temp << "Error - Can only reshape Data with data points of rank 0. "  
          << "This Data has data points with rank: "  
          << getPointDataView().getRank();  
     throw DataException(temp.str());  
   }  
   DataBlocks2D newData(getNumSamples(),getNumDPPSample(), DataArrayView::noValues(shape));  
   DataArrayView newView(newData.getData(),shape);  
   //  
   // Copy the original data to every value for the new shape  
   int i,j;  
   int nRows=m_data.getNumRows();  
   int nCols=m_data.getNumCols();  
 #pragma omp parallel for private(i,j) schedule(static)  
   for (i=0;i<nRows;++i) {  
     for (j=0;j<nCols;++j) {  
       //  
       // Copy the data into the specified offset  
       // NOTE: An exception may be thown from this call if  
       // DOASSERT is on which of course will play  
       // havoc with the omp threads. Run single threaded  
       // if using DOASSERT.  
       newView.copy(newData.index(i,j),m_data.getData()[m_data.index(i,j)]);  
     }  
   }  
   m_data.Swap(newData);  
   DataArrayView temp(m_data.getData(),shape);  
   setPointDataView(temp);  
158  }  }
159    
160  DataAbstract*  DataAbstract*
# Line 176  DataExpanded::setSlice(const DataAbstrac Line 171  DataExpanded::setSlice(const DataAbstrac
171    if (tempDataExp==0) {    if (tempDataExp==0) {
172      throw DataException("Programming error - casting to DataExpanded.");      throw DataException("Programming error - casting to DataExpanded.");
173    }    }
174      //
175      // get shape of slice
176      DataArrayView::ShapeType shape(DataArrayView::getResultSliceShape(region));
177      DataArrayView::RegionLoopRangeType region_loop_range=getSliceRegionLoopRange(region);
178      //
179      // check shape
180    if (getPointDataView().getRank()!=region.size()) {    if (getPointDataView().getRank()!=region.size()) {
181      throw DataException("Error - Invalid slice region.");      throw DataException("Error - Invalid slice region.");
182    }    }
183    if (!value->getPointDataView().checkShape(DataArrayView::getResultSliceShape(region))) {    if (tempDataExp->getPointDataView().getRank()>0 && !value->getPointDataView().checkShape(shape)) {
184      throw DataException (value->getPointDataView().createShapeErrorMessage(      throw DataException (value->getPointDataView().createShapeErrorMessage(
185          "Error - Couldn't copy slice due to shape mismatch.",DataArrayView::getResultSliceShape(region)));          "Error - Couldn't copy slice due to shape mismatch.",shape));
186    }    }
187    //    //
188    // copy the data    // copy the data from the slice into this object
189    DataArrayView::ValueType::size_type numRows=m_data.getNumRows();    DataArrayView::ValueType::size_type numRows=m_data.getNumRows();
190    DataArrayView::ValueType::size_type numCols=m_data.getNumCols();    DataArrayView::ValueType::size_type numCols=m_data.getNumCols();
191    int i, j;    int i, j;
192  #pragma omp parallel for private(i,j) schedule(static)    #pragma omp parallel for private(i,j) schedule(static)
193    for (i=0;i<numRows;i++) {    for (i=0;i<numRows;i++) {
194      for (j=0;j<numCols;j++) {      for (j=0;j<numCols;j++) {
195        getPointDataView().copySliceFrom(getPointOffset(i,j),tempDataExp->getPointDataView(),tempDataExp->getPointOffset(i,j),region);        getPointDataView().copySliceFrom(getPointOffset(i,j),
196                                           tempDataExp->getPointDataView(),
197                                           tempDataExp->getPointOffset(i,j),
198                                           region_loop_range);
199      }      }
200    }    }
201  }  }
# Line 200  void Line 204  void
204  DataExpanded::copy(const DataArrayView& value)  DataExpanded::copy(const DataArrayView& value)
205  {  {
206    //    //
207    // Copy a single value to every data point    // copy a single value to every data point in this object
208    int nRows=m_data.getNumRows();    int nRows=m_data.getNumRows();
209    int nCols=m_data.getNumCols();    int nCols=m_data.getNumCols();
210    int i, j;    int i,j;
211  #pragma omp parallel for private(i,j) schedule(static)    #pragma omp parallel for private(i,j) schedule(static)
212    for (i=0;i<nRows;++i) {    for (i=0;i<nRows;i++) {
213      for (j=0;j<nCols;++j) {      for (j=0;j<nCols;j++) {
       //  
       // Copy the data into the specified offset  
214        // NOTE: An exception may be thown from this call if        // NOTE: An exception may be thown from this call if
215        // DOASSERT is on which of course will play        // DOASSERT is on which of course will play
216        // havoc with the omp threads. Run single threaded        // havoc with the omp threads. Run single threaded
# Line 222  void Line 224  void
224  DataExpanded::copy(const boost::python::numeric::array& value)  DataExpanded::copy(const boost::python::numeric::array& value)
225  {  {
226    //    //
227    // first convert the numarray into a DataArrayView format    // first convert the numarray into a DataArray object
228    DataArray temp(value);    DataArray temp(value);
229    //    //
230    // check the input shape matches this shape, this will throw an exception    // check the input shape matches this shape
231    if (!getPointDataView().checkShape(temp.getView().getShape())) {    if (!getPointDataView().checkShape(temp.getView().getShape())) {
232      throw DataException(getPointDataView().createShapeErrorMessage(      throw DataException(getPointDataView().createShapeErrorMessage(
233                          "Error - (DataExpanded) Cannot copy due to shape mismatch.",                          "Error - (DataExpanded) Cannot copy due to shape mismatch.",
234                          temp.getView().getShape()));                          temp.getView().getShape()));
235    }    }
236    //    //
237    // now copy over the entire data structure    // now copy over the data
238    copy(temp.getView());    copy(temp.getView());
239  }  }
240    
# Line 242  DataExpanded::initialise(const DataArray Line 244  DataExpanded::initialise(const DataArray
244                           int noDataPointsPerSample)                           int noDataPointsPerSample)
245  {  {
246    //    //
247    // resize data to the required size    // resize data array to the required size
248    m_data.resize(noSamples,noDataPointsPerSample,DataArrayView::noValues(shape));    m_data.resize(noSamples,noDataPointsPerSample,DataArrayView::noValues(shape));
249    //    //
250    // create a point data viewer of the data    // create the data view of the data array
251    DataArrayView temp(m_data.getData(),shape);    DataArrayView temp(m_data.getData(),shape);
252    setPointDataView(temp);    setPointDataView(temp);
253  }  }
# Line 254  string Line 256  string
256  DataExpanded::toString() const  DataExpanded::toString() const
257  {  {
258    stringstream temp;    stringstream temp;
259      FunctionSpace fs=getFunctionSpace();
260    //    //
261    // create a temporary view as the offset will be changed    // create a temporary view as the offset will be changed
262    DataArrayView tempView(getPointDataView().getData(),getPointDataView().getShape(),getPointDataView().getOffset());    DataArrayView tempView(getPointDataView().getData(),getPointDataView().getShape(),getPointDataView().getOffset());
263    for (int i=0;i<m_data.getNumRows();++i) {    for (int i=0;i<m_data.getNumRows();i++) {
264      for (int j=0;j<m_data.getNumCols();++j) {      for (int j=0;j<m_data.getNumCols();j++) {
265        tempView.setOffset(m_data.index(i,j));        tempView.setOffset(m_data.index(i,j));
266        stringstream suffix;        stringstream suffix;
267        suffix << "(" << i << "," << j << ")";        suffix << "( id: " << i << ", ref: " << fs.getReferenceIDOfSample(i) << ", pnt: " << j << ")";
268        temp << tempView.toString(suffix.str());        temp << tempView.toString(suffix.str());
269        if (!(i==(m_data.getNumRows()-1) && j==(m_data.getNumCols()-1))) {        if (!(i==(m_data.getNumRows()-1) && j==(m_data.getNumCols()-1))) {
270          temp << endl;          temp << endl;
271        }        }
272      }      }
273    }    }
274    return temp.str();    return string(temp.str());
275  }  }
276    
277  DataArrayView::ValueType::size_type  DataArrayView::ValueType::size_type
# Line 289  DataExpanded::getDataPoint(int sampleNo, Line 292  DataExpanded::getDataPoint(int sampleNo,
292  DataArrayView::ValueType::size_type  DataArrayView::ValueType::size_type
293  DataExpanded::getLength() const  DataExpanded::getLength() const
294  {  {
295    return m_data.getData().size();    return m_data.size();
296  }  }
297    
298    int
299    DataExpanded::archiveData(ofstream& archiveFile,
300                              const DataArrayView::ValueType::size_type noValues) const
301    {
302      return(m_data.archiveData(archiveFile, noValues));
303    }
304    
305    int
306    DataExpanded::extractData(ifstream& archiveFile,
307                              const DataArrayView::ValueType::size_type noValues)
308    {
309      return(m_data.extractData(archiveFile, noValues));
310    }
311    
312    void
313    DataExpanded::copyToDataPoint(const int sampleNo, const int dataPointNo, const double value) {
314      //
315      // Get the number of samples and data-points per sample.
316      int numSamples = getNumSamples();
317      int numDataPointsPerSample = getNumDPPSample();
318      int dataPointRank = getPointDataView().getRank();
319      ShapeType dataPointShape = getPointDataView().getShape();
320      if (numSamples*numDataPointsPerSample > 0) {
321         //TODO: global error handling
322         if ((sampleNo >= numSamples) || (sampleNo < 0 )) {
323              throw DataException("Error - DataExpanded::copyDataPoint invalid sampleNo.");
324         }
325         if ((dataPointNo >= numDataPointsPerSample) || (dataPointNo < 0)) {
326               throw DataException("Error - DataExpanded::copyDataPoint invalid dataPointNoInSample.");
327         }
328         DataArrayView dataPointView = getDataPoint(sampleNo, dataPointNo);
329         if (dataPointRank==0) {
330             dataPointView()=value;
331         } else if (dataPointRank==1) {
332            for (int i=0; i<dataPointShape[0]; i++) {
333                dataPointView(i)=value;
334            }
335         } else if (dataPointRank==2) {
336            for (int i=0; i<dataPointShape[0]; i++) {
337               for (int j=0; j<dataPointShape[1]; j++) {
338                  dataPointView(i,j)=value;
339               }
340            }
341         } else if (dataPointRank==3) {
342            for (int i=0; i<dataPointShape[0]; i++) {
343               for (int j=0; j<dataPointShape[1]; j++) {
344                  for (int k=0; k<dataPointShape[2]; k++) {
345                     dataPointView(i,j,k)=value;
346                  }
347               }
348            }
349         } else if (dataPointRank==4) {
350             for (int i=0; i<dataPointShape[0]; i++) {
351               for (int j=0; j<dataPointShape[1]; j++) {
352                 for (int k=0; k<dataPointShape[2]; k++) {
353                   for (int l=0; l<dataPointShape[3]; l++) {
354                      dataPointView(i,j,k,l)=value;
355                   }
356                 }
357               }
358             }
359         }
360      }
361    }
362    void
363    DataExpanded::copyToDataPoint(const int sampleNo, const int dataPointNo, const boost::python::numeric::array& value) {
364      //
365      // Get the number of samples and data-points per sample.
366      int numSamples = getNumSamples();
367      int numDataPointsPerSample = getNumDPPSample();
368      int dataPointRank = getPointDataView().getRank();
369      ShapeType dataPointShape = getPointDataView().getShape();
370      //
371      // check rank:
372      if (value.getrank()!=dataPointRank)
373           throw DataException("Rank of numarray does not match Data object rank");
374      if (numSamples*numDataPointsPerSample > 0) {
375         //TODO: global error handling
376         if ((sampleNo >= numSamples) || (sampleNo < 0 )) {
377              throw DataException("Error - DataExpanded::copyDataPoint invalid sampleNo.");
378         }
379         if ((dataPointNo >= numDataPointsPerSample) || (dataPointNo < 0)) {
380               throw DataException("Error - DataExpanded::copyDataPoint invalid dataPointNoInSample.");
381         }
382         DataArrayView dataPointView = getDataPoint(sampleNo, dataPointNo);
383         if (dataPointRank==0) {
384             dataPointView()=extract<double>(value[0]);
385         } else if (dataPointRank==1) {
386            for (int i=0; i<dataPointShape[0]; i++) {
387                dataPointView(i)=extract<double>(value[i]);
388            }
389         } else if (dataPointRank==2) {
390            for (int i=0; i<dataPointShape[0]; i++) {
391               for (int j=0; j<dataPointShape[1]; j++) {
392                  dataPointView(i,j)=extract<double>(value[i][j]);
393               }
394            }
395         } else if (dataPointRank==3) {
396            for (int i=0; i<dataPointShape[0]; i++) {
397               for (int j=0; j<dataPointShape[1]; j++) {
398                  for (int k=0; k<dataPointShape[2]; k++) {
399                     dataPointView(i,j,k)=extract<double>(value[i][j][k]);
400                  }
401               }
402            }
403         } else if (dataPointRank==4) {
404             for (int i=0; i<dataPointShape[0]; i++) {
405               for (int j=0; j<dataPointShape[1]; j++) {
406                 for (int k=0; k<dataPointShape[2]; k++) {
407                   for (int l=0; l<dataPointShape[3]; l++) {
408                      dataPointView(i,j,k,l)=extract<double>(value[i][j][k][l]);
409                   }
410                 }
411               }
412             }
413         }
414      }
415    }
416    void
417    DataExpanded::copyAll(const boost::python::numeric::array& value) {
418      //
419      // Get the number of samples and data-points per sample.
420      int numSamples = getNumSamples();
421      int numDataPointsPerSample = getNumDPPSample();
422      int dataPointRank = getPointDataView().getRank();
423      ShapeType dataPointShape = getPointDataView().getShape();
424      //
425      // check rank:
426      if (value.getrank()!=dataPointRank+1)
427           throw DataException("Rank of numarray does not match Data object rank");
428      if (value.getshape()[0]!=numSamples*numDataPointsPerSample)
429           throw DataException("leading dimension of numarray is too small");
430      //
431      int dataPoint = 0;
432      for (int sampleNo = 0; sampleNo < numSamples; sampleNo++) {
433        for (int dataPointNo = 0; dataPointNo < numDataPointsPerSample; dataPointNo++) {
434          DataArrayView dataPointView = getDataPoint(sampleNo, dataPointNo);
435          if (dataPointRank==0) {
436             dataPointView()=extract<double>(value[dataPoint]);
437          } else if (dataPointRank==1) {
438             for (int i=0; i<dataPointShape[0]; i++) {
439                dataPointView(i)=extract<double>(value[dataPoint][i]);
440             }
441          } else if (dataPointRank==2) {
442             for (int i=0; i<dataPointShape[0]; i++) {
443               for (int j=0; j<dataPointShape[1]; j++) {
444                 dataPointView(i,j)=extract<double>(value[dataPoint][i][j]);
445               }
446             }
447           } else if (dataPointRank==3) {
448             for (int i=0; i<dataPointShape[0]; i++) {
449               for (int j=0; j<dataPointShape[1]; j++) {
450                 for (int k=0; k<dataPointShape[2]; k++) {
451                     dataPointView(i,j,k)=extract<double>(value[dataPoint][i][j][k]);
452                 }
453               }
454             }
455           } else if (dataPointRank==4) {
456             for (int i=0; i<dataPointShape[0]; i++) {
457               for (int j=0; j<dataPointShape[1]; j++) {
458                 for (int k=0; k<dataPointShape[2]; k++) {
459                   for (int l=0; l<dataPointShape[3]; l++) {
460                     dataPointView(i,j,k,l)=extract<double>(value[dataPoint][i][j][k][l]);
461                   }
462                 }
463               }
464             }
465          }
466          dataPoint++;
467        }
468      }
469    }
470    void
471    DataExpanded::symmetric(DataAbstract* ev)
472    {
473      int sampleNo,dataPointNo;
474      int numSamples = getNumSamples();
475      int numDataPointsPerSample = getNumDPPSample();
476      DataExpanded* temp_ev=dynamic_cast<DataExpanded*>(ev);
477      if (temp_ev==0) {
478        throw DataException("Error - DataExpanded::symmetric: casting to DataExpanded failed (propably a programming error).");
479      }
480      DataArrayView& thisView=getPointDataView();
481      DataArrayView& evView=ev->getPointDataView();
482      #pragma omp parallel for private(sampleNo,dataPointNo) schedule(static)
483      for (sampleNo = 0; sampleNo < numSamples; sampleNo++) {
484        for (dataPointNo = 0; dataPointNo < numDataPointsPerSample; dataPointNo++) {
485             DataArrayView::symmetric(thisView,getPointOffset(sampleNo,dataPointNo),
486                                        evView,ev->getPointOffset(sampleNo,dataPointNo));
487        }
488      }
489    }
490    void
491    DataExpanded::nonsymmetric(DataAbstract* ev)
492    {
493      int sampleNo,dataPointNo;
494      int numSamples = getNumSamples();
495      int numDataPointsPerSample = getNumDPPSample();
496      DataExpanded* temp_ev=dynamic_cast<DataExpanded*>(ev);
497      if (temp_ev==0) {
498        throw DataException("Error - DataExpanded::nonsymmetric: casting to DataExpanded failed (propably a programming error).");
499      }
500      DataArrayView& thisView=getPointDataView();
501      DataArrayView& evView=ev->getPointDataView();
502      #pragma omp parallel for private(sampleNo,dataPointNo) schedule(static)
503      for (sampleNo = 0; sampleNo < numSamples; sampleNo++) {
504        for (dataPointNo = 0; dataPointNo < numDataPointsPerSample; dataPointNo++) {
505             DataArrayView::nonsymmetric(thisView,getPointOffset(sampleNo,dataPointNo),
506                                        evView,ev->getPointOffset(sampleNo,dataPointNo));
507        }
508      }
509    }
510    void
511    DataExpanded::trace(DataAbstract* ev, int axis_offset)
512    {
513      int sampleNo,dataPointNo;
514      int numSamples = getNumSamples();
515      int numDataPointsPerSample = getNumDPPSample();
516      DataExpanded* temp_ev=dynamic_cast<DataExpanded*>(ev);
517      if (temp_ev==0) {
518        throw DataException("Error - DataExpanded::trace: casting to DataExpanded failed (propably a programming error).");
519      }
520      DataArrayView& thisView=getPointDataView();
521      DataArrayView& evView=ev->getPointDataView();
522      #pragma omp parallel for private(sampleNo,dataPointNo) schedule(static)
523      for (sampleNo = 0; sampleNo < numSamples; sampleNo++) {
524        for (dataPointNo = 0; dataPointNo < numDataPointsPerSample; dataPointNo++) {
525             DataArrayView::trace(thisView,getPointOffset(sampleNo,dataPointNo),
526                                        evView,ev->getPointOffset(sampleNo,dataPointNo),axis_offset);
527        }
528      }
529    }
530    
531    void
532    DataExpanded::transpose(DataAbstract* ev, int axis_offset)
533    {
534      int sampleNo,dataPointNo;
535      int numSamples = getNumSamples();
536      int numDataPointsPerSample = getNumDPPSample();
537      DataExpanded* temp_ev=dynamic_cast<DataExpanded*>(ev);
538      if (temp_ev==0) {
539        throw DataException("Error - DataExpanded::transpose: casting to DataExpanded failed (propably a programming error).");
540      }
541      DataArrayView& thisView=getPointDataView();
542      DataArrayView& evView=ev->getPointDataView();
543      #pragma omp parallel for private(sampleNo,dataPointNo) schedule(static)
544      for (sampleNo = 0; sampleNo < numSamples; sampleNo++) {
545        for (dataPointNo = 0; dataPointNo < numDataPointsPerSample; dataPointNo++) {
546             DataArrayView::transpose(thisView,getPointOffset(sampleNo,dataPointNo),
547                                        evView,ev->getPointOffset(sampleNo,dataPointNo),axis_offset);
548        }
549      }
550    }
551    
552    void
553    DataExpanded::swapaxes(DataAbstract* ev, int axis0, int axis1)
554    {
555      int sampleNo,dataPointNo;
556      int numSamples = getNumSamples();
557      int numDataPointsPerSample = getNumDPPSample();
558      DataExpanded* temp_ev=dynamic_cast<DataExpanded*>(ev);
559      if (temp_ev==0) {
560        throw DataException("Error - DataExpanded::swapaxes: casting to DataExpanded failed (propably a programming error).");
561      }
562      DataArrayView& thisView=getPointDataView();
563      DataArrayView& evView=ev->getPointDataView();
564      #pragma omp parallel for private(sampleNo,dataPointNo) schedule(static)
565      for (sampleNo = 0; sampleNo < numSamples; sampleNo++) {
566        for (dataPointNo = 0; dataPointNo < numDataPointsPerSample; dataPointNo++) {
567             DataArrayView::swapaxes(thisView,getPointOffset(sampleNo,dataPointNo),
568                                        evView,ev->getPointOffset(sampleNo,dataPointNo),axis0,axis1);
569        }
570      }
571    }
572    void
573    DataExpanded::eigenvalues(DataAbstract* ev)
574    {
575      int sampleNo,dataPointNo;
576      int numSamples = getNumSamples();
577      int numDataPointsPerSample = getNumDPPSample();
578      DataExpanded* temp_ev=dynamic_cast<DataExpanded*>(ev);
579      if (temp_ev==0) {
580        throw DataException("Error - DataExpanded::eigenvalues: casting to DataExpanded failed (propably a programming error).");
581      }
582      DataArrayView& thisView=getPointDataView();
583      DataArrayView& evView=ev->getPointDataView();
584      #pragma omp parallel for private(sampleNo,dataPointNo) schedule(static)
585      for (sampleNo = 0; sampleNo < numSamples; sampleNo++) {
586        for (dataPointNo = 0; dataPointNo < numDataPointsPerSample; dataPointNo++) {
587             DataArrayView::eigenvalues(thisView,getPointOffset(sampleNo,dataPointNo),
588                                        evView,ev->getPointOffset(sampleNo,dataPointNo));
589        }
590      }
591    }
592    void
593    DataExpanded::eigenvalues_and_eigenvectors(DataAbstract* ev,DataAbstract* V,const double tol)
594    {
595      int numSamples = getNumSamples();
596      int numDataPointsPerSample = getNumDPPSample();
597      int sampleNo,dataPointNo;
598      DataExpanded* temp_ev=dynamic_cast<DataExpanded*>(ev);
599      if (temp_ev==0) {
600        throw DataException("Error - DataExpanded::eigenvalues_and_eigenvectors: casting to DataExpanded failed (propably a programming error).");
601      }
602      DataExpanded* temp_V=dynamic_cast<DataExpanded*>(V);
603      if (temp_V==0) {
604        throw DataException("Error - DataExpanded::eigenvalues_and_eigenvectors: casting to DataExpanded failed (propably a programming error).");
605      }
606      DataArrayView& thisView=getPointDataView();
607      DataArrayView& evView=ev->getPointDataView();
608      DataArrayView& VView=V->getPointDataView();
609      #pragma omp parallel for private(sampleNo,dataPointNo) schedule(static)
610      for (sampleNo = 0; sampleNo < numSamples; sampleNo++) {
611        for (dataPointNo = 0; dataPointNo < numDataPointsPerSample; dataPointNo++) {
612             DataArrayView::eigenvalues_and_eigenvectors(thisView,getPointOffset(sampleNo,dataPointNo),
613                                                         evView,ev->getPointOffset(sampleNo,dataPointNo),
614                                                         VView,V->getPointOffset(sampleNo,dataPointNo),
615                                                         tol);
616        }
617      }
618    }
619    
620    void
621    DataExpanded::setToZero(){
622      int numSamples = getNumSamples();
623      int numDataPointsPerSample = getNumDPPSample();
624      DataArrayView& thisView=getPointDataView();
625      DataArrayView::ValueType::size_type n = thisView.noValues();
626      double* p;
627      int  sampleNo,dataPointNo, i;
628      #pragma omp parallel for private(sampleNo,dataPointNo,p,i) schedule(static)
629      for (sampleNo = 0; sampleNo < numSamples; sampleNo++) {
630        for (dataPointNo = 0; dataPointNo < numDataPointsPerSample; dataPointNo++) {
631            p=&(m_data[getPointOffset(sampleNo,dataPointNo)]);
632            for (int i=0; i<n ;++i) p[i]=0.;
633        }
634      }
635    }
636    
637    
638    void
639    DataExpanded::dump(const std::string fileName) const
640    {
641       #ifdef PASO_MPI
642       throw DataException("Error - DataExpanded:: dump is not implemented for MPI yet.");
643       #endif
644       #ifdef USE_NETCDF
645       const int ldims=2+DataArrayView::maxRank;
646       const NcDim* ncdims[ldims];
647       NcVar *var, *ids;
648       int rank = getPointDataView().getRank();
649       int type=  getFunctionSpace().getTypeCode();
650       int ndims =0;
651       long dims[ldims];
652       DataArrayView::ShapeType shape = getPointDataView().getShape();
653    
654       // netCDF error handler
655       NcError err(NcError::verbose_nonfatal);
656       // Create the file.
657       NcFile dataFile(fileName.c_str(), NcFile::Replace);
658       // check if writing was successful
659       if (!dataFile.is_valid())
660            throw DataException("Error - DataExpanded:: opening of netCDF file for output failed.");
661       if (!dataFile.add_att("type","expanded") )
662            throw DataException("Error - DataExpanded:: appending data type to netCDF file failed.");
663       if (!dataFile.add_att("rank",rank) )
664            throw DataException("Error - DataExpanded:: appending rank attribute to netCDF file failed.");
665       if (!dataFile.add_att("function_space_type",type))
666            throw DataException("Error - DataExpanded:: appending function space attribute to netCDF file failed.");
667       ndims=rank+2;
668       if ( rank >0 ) {
669           dims[0]=shape[0];
670           if (! (ncdims[0] = dataFile.add_dim("d0",shape[0])) )
671                throw DataException("Error - DataExpanded:: appending ncdimsion 0 to netCDF file failed.");
672       }
673       if ( rank >1 ) {
674           dims[1]=shape[1];
675           if (! (ncdims[1] = dataFile.add_dim("d1",shape[1])) )
676                throw DataException("Error - DataExpanded:: appending ncdimsion 1 to netCDF file failed.");
677       }
678       if ( rank >2 ) {
679           dims[2]=shape[2];
680           if (! (ncdims[2] = dataFile.add_dim("d2", shape[2])) )
681                throw DataException("Error - DataExpanded:: appending ncdimsion 2 to netCDF file failed.");
682       }
683       if ( rank >3 ) {
684           dims[3]=shape[3];
685           if (! (ncdims[3] = dataFile.add_dim("d3", shape[3])) )
686                throw DataException("Error - DataExpanded:: appending ncdimsion 3 to netCDF file failed.");
687       }
688       dims[rank]=getFunctionSpace().getNumDataPointsPerSample();
689       if (! (ncdims[rank] = dataFile.add_dim("num_data_points_per_sample", dims[rank])) )
690                throw DataException("Error - DataExpanded:: appending num_data_points_per_sample to netCDF file failed.");
691       dims[rank+1]=getFunctionSpace().getNumSamples();
692       if (! (ncdims[rank+1] = dataFile.add_dim("num_samples", dims[rank+1])) )
693                throw DataException("Error - DataExpanded:: appending num_sample to netCDF file failed.");
694    
695       if (! ( ids = dataFile.add_var("id", ncInt, ncdims[rank+1])) )
696            throw DataException("Error - DataExpanded:: appending reference id to netCDF file failed.");
697       const int* ids_p=getFunctionSpace().borrowSampleReferenceIDs();
698       if (! (ids->put(ids_p,dims[rank+1])) )
699            throw DataException("Error - DataExpanded:: copy reference id  to netCDF buffer failed.");
700    
701       if (! ( var = dataFile.add_var("data", ncDouble, ndims, ncdims)) )
702            throw DataException("Error - DataExpanded:: appending variable to netCDF file failed.");
703       if (! (var->put(&m_data[0],dims)) )
704            throw DataException("Error - DataExpanded:: copy data to netCDF buffer failed.");
705       #else
706       throw DataException("Error - DataExpanded:: dump is not configured with netCDF. Please contact your installation manager.");
707       #endif
708    }
709  }  // end of namespace  }  // end of namespace

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