GetFEM  5.4.2
getfem_export.h
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1 /* -*- c++ -*- (enables emacs c++ mode) */
2 /*===========================================================================
3 
4  Copyright (C) 2001-2020 Yves Renard, Julien Pommier
5 
6  This file is a part of GetFEM
7 
8  GetFEM is free software; you can redistribute it and/or modify it
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30 ===========================================================================*/
31 
32 /**@file getfem_export.h
33  @author Yves Renard <Yves.Renard@insa-lyon.fr>,
34  @author Julien Pommier <Julien.Pommier@insa-toulouse.fr>
35  @date October 15, 2001.
36  @brief Export solutions to various formats.
37 */
38 #ifndef GETFEM_EXPORT_H__
39 #define GETFEM_EXPORT_H__
40 
41 #include "getfem_interpolation.h"
42 #include "getfem_mesh_slice.h"
43 #include <list>
44 
45 namespace getfem {
46 
47  /* ********************************************************************* */
48  /* */
49  /* Save a solution in a file with a Pk interpolation. */
50  /* */
51  /* ********************************************************************* */
52 
53  inline std::string remove_spaces(const std::string &s) {
54  std::string s2(s);
55  for (unsigned i=0; i < s.size(); ++i)
56  if (s2[i] <= ' ') s2[i] = '_';
57  return s2;
58  }
59 
60  /** @brief VTK/VTU export.
61 
62  export class to VTK/VTU file format
63  ( http://www.kitware.com/vtk.html,
64  legacy and serial vtkUnstructuredGrid)
65 
66  A vtk_export can store multiple scalar/vector fields.
67  */
68  class vtk_export {
69  protected:
70  std::ostream &os;
71  char header[256]; // hard limit in vtk/vtu
72  bool ascii;
73  bool vtk; // true for vtk, false for vtu
74  const stored_mesh_slice *psl;
75  std::unique_ptr<mesh_fem> pmf;
76  dal::bit_vector pmf_dof_used;
77  std::vector<unsigned> pmf_mapping_type;
78  std::ofstream real_os;
79  dim_type dim_;
80  bool reverse_endian;
81  std::vector<unsigned char> vals;
82  enum { EMPTY, HEADER_WRITTEN, STRUCTURE_WRITTEN, IN_CELL_DATA,
83  IN_POINT_DATA } state;
84 
85  template<class T> void write_val(T v);
86  template<class V> void write_vec(V p, size_type qdim);
87  template<class IT> void write_3x3tensor(IT p);
88  void write_separ();
89  void clear_vals();
90  void write_vals();
91 
92  public:
93  vtk_export(const std::string& fname, bool ascii_ = false, bool vtk_= true);
94  vtk_export(std::ostream &os_, bool ascii_ = false, bool vtk_ = true);
95  ~vtk_export(); // a vtu file is completed upon calling the destructor
96  /** should be called before write_*_data */
97  void exporting(const mesh& m);
98  void exporting(const mesh_fem& mf);
99  void exporting(const stored_mesh_slice& sl);
100 
101  /** the header is the second line of text in the exported file,
102  you can put whatever you want -- call this before any write_dataset
103  or write_mesh */
104  void set_header(const std::string& s);
105  void write_mesh();
106 
107  /** append a new scalar or vector field defined on mf to the .vtk/.vtu file.
108  If you are exporting a slice, or if mf != get_exported_mesh_fem(), U
109  will be interpolated on the slice, or on get_exported_mesh_fem().
110 
111  Note that vectors should be written AFTER scalars, and tensors
112  after vectors
113 
114  NO SPACE ALLOWED in 'name' */
115  template<class VECT> void write_point_data(const getfem::mesh_fem &mf,
116  const VECT& U0,
117  const std::string& name);
118 
119  /** append a new scalar or vector field to .vtk file. The Uslice vector is
120  the field interpolated on the exported mesh_slice This function should
121  not be used if you are not exporting a slice! NO SPACE ALLOWED in
122  'name' */
123  template<class VECT> void write_sliced_point_data(const VECT& Uslice,
124  const std::string& name,
125  size_type qdim=1);
126  /** export data which is constant over each element. You should not use
127  this function if you are exporting a slice. U should have
128  convex_index().card() elements. */
129 
130  template<class VECT> void write_cell_data(const VECT& U,
131  const std::string& name,
132  size_type qdim = 1);
133  /** export a data_set correspounding to measures of quality for each convex
134  of the supplied mesh (which should have the same number of convex than
135  the one used in the vtk_export)
136 
137  If a slice is being exported, the convex quality is written as
138  point_data (TO IMPROVE ONEDAY), if a mesh/mesh_fem is being exported,
139  it is written as cell_data
140  */
141  void write_mesh_quality(const mesh &m);
142  void write_normals();
143  const stored_mesh_slice& get_exported_slice() const;
144  const mesh_fem& get_exported_mesh_fem() const;
145  private:
146  void init();
147  void check_header();
148  void write_mesh_structure_from_slice();
149  void write_mesh_structure_from_mesh_fem();
150  void switch_to_cell_data();
151  void switch_to_point_data();
152  template<class VECT> void write_dataset_(const VECT& U,
153  const std::string& name,
154  size_type qdim,
155  bool cell_data=false);
156  };
157 
158  template<class T> void vtk_export::write_val(T v) {
159  if (ascii) os << " " << v;
160  else {
161  char *p = (char*)&v;
162  if (vtk) {
163  if (reverse_endian)
164  for (size_type i=0; i < sizeof(v)/2; ++i)
165  std::swap(p[i], p[sizeof(v)-i-1]);
166  os.write(p, sizeof(T));
167  } else {
168  union { T value; unsigned char bytes[sizeof(T)]; } UNION;
169  UNION.value = v;
170  for (size_type i=0; i < sizeof(T); i++)
171  vals.push_back(UNION.bytes[i]);
172  }
173  }
174  }
175 
176  template<class IT> void vtk_export::write_vec(IT p, size_type qdim) {
177  float v[3];
178  for (size_type i=0; i < qdim; ++i) {
179  v[i] = float(p[i]);
180  }
181  for (size_type i=qdim; i < 3; ++i) v[i] = 0.0f;
182  write_val(v[0]);write_val(v[1]);write_val(v[2]);
183  }
184 
185  template<class IT> void vtk_export::write_3x3tensor(IT p) {
186  float v[3][3];
187  memset(v, 0, sizeof v);
188  for (size_type i=0; i < dim_; ++i) {
189  for (size_type j=0; j < dim_; ++j)
190  v[i][j] = float(p[i + j*dim_]);
191  }
192  for (size_type i=0; i < 3; ++i) {
193  for (size_type j=0; j < 3; ++j) {
194  write_val(v[i][j]);
195  }
196  if (ascii) os << "\n";
197  }
198  }
199 
200  template<class VECT>
201  void vtk_export::write_point_data(const getfem::mesh_fem &mf, const VECT& U,
202  const std::string& name) {
203  size_type Q = (gmm::vect_size(U) / mf.nb_dof()) * mf.get_qdim();
204  size_type qdim = mf.get_qdim();
205  if (psl) {
206  std::vector<scalar_type> Uslice(Q*psl->nb_points());
207  psl->interpolate(mf, U, Uslice);
208  write_dataset_(Uslice, name, qdim);
209  } else {
210  std::vector<scalar_type> V(pmf->nb_dof() * Q);
211  if (&mf != &(*pmf)) {
212  interpolation(mf, *pmf, U, V);
213  } else gmm::copy(U,V);
214  size_type cnt = 0;
215  for (dal::bv_visitor d(pmf_dof_used); !d.finished(); ++d, ++cnt) {
216  if (cnt != d)
217  for (size_type q=0; q < Q; ++q) {
218  V[cnt*Q + q] = V[d*Q + q];
219  }
220  }
221  V.resize(Q*pmf_dof_used.card());
222  write_dataset_(V, name, qdim);
223  }
224  }
225 
226  template<class VECT>
227  void vtk_export::write_cell_data(const VECT& U, const std::string& name,
228  size_type qdim) {
229  write_dataset_(U, name, qdim, true);
230  }
231 
232  template<class VECT>
234  const std::string& name,
235  size_type qdim) {
236  write_dataset_(U, name, qdim, false);
237  }
238 
239  template<class VECT>
240  void vtk_export::write_dataset_(const VECT& U, const std::string& name,
241  size_type qdim, bool cell_data) {
242  write_mesh();
243  size_type nb_val = 0;
244  if (cell_data) {
245  switch_to_cell_data();
246  nb_val = psl ? psl->linked_mesh().convex_index().card()
247  : pmf->linked_mesh().convex_index().card();
248  } else {
249  switch_to_point_data();
250  nb_val = psl ? psl->nb_points() : pmf_dof_used.card();
251  }
252  size_type Q = qdim;
253  if (Q == 1) Q = gmm::vect_size(U) / nb_val;
254  GMM_ASSERT1(gmm::vect_size(U) == nb_val*Q,
255  "inconsistency in the size of the dataset: "
256  << gmm::vect_size(U) << " != " << nb_val << "*" << Q);
257  if (vtk) write_separ();
258  if (!vtk && !ascii) write_val(float(gmm::vect_size(U)));
259  if (Q == 1) {
260  if (vtk)
261  os << "SCALARS " << remove_spaces(name) << " float 1\n"
262  << "LOOKUP_TABLE default\n";
263  else
264  os << "<DataArray type=\"Float32\" Name=\"" << remove_spaces(name) << "\" "
265  << (ascii ? "format=\"ascii\">\n" : "format=\"binary\">\n");
266  for (size_type i=0; i < nb_val; ++i)
267  write_val(float(U[i]));
268  } else if (Q <= 3) {
269  if (vtk)
270  os << "VECTORS " << remove_spaces(name) << " float\n";
271  else
272  os << "<DataArray type=\"Float32\" Name=\"" << remove_spaces(name) << "\" "
273  << "NumberOfComponents=\"3\" "
274  << (ascii ? "format=\"ascii\">\n" : "format=\"binary\">\n");
275  for (size_type i=0; i < nb_val; ++i)
276  write_vec(U.begin() + i*Q, Q);
277  } else if (Q == gmm::sqr(dim_)) {
278  /* tensors : coef are supposed to be stored in FORTRAN order
279  in the VTK/VTU file, they are written with C (row major) order
280  */
281  if (vtk)
282  os << "TENSORS " << remove_spaces(name) << " float\n";
283  else
284  os << "<DataArray type=\"Float32\" Name=\"" << remove_spaces(name)
285  << "\" NumberOfComponents=\"9\" "
286  << (ascii ? "format=\"ascii\">\n" : "format=\"binary\">\n");
287  for (size_type i=0; i < nb_val; ++i)
288  write_3x3tensor(U.begin() + i*Q);
289  } else
290  GMM_ASSERT1(false, std::string(vtk ? "vtk" : "vtu")
291  + " does not accept vectors of dimension > 3");
292  write_vals();
293  if (vtk) write_separ();
294  if (!vtk) os << "\n" << "</DataArray>\n";
295  }
296 
297 
298  class vtu_export : public vtk_export {
299  public:
300  vtu_export(const std::string& fname, bool ascii_ = false) : vtk_export(fname, ascii_, false) {}
301  vtu_export(std::ostream &os_, bool ascii_ = false) : vtk_export(os_, ascii_, false) {}
302  };
303 
304  /** @brief A (quite large) class for exportation of data to IBM OpenDX.
305 
306  http://www.opendx.org/
307 
308  This class is more capable than the VTK export, as it is
309  possible to export many different meshes/slices, with their
310  edges, datasets, and create series of dataset for animations
311  etc, in a single '.dx' file.
312 
313  Moreover, it is able to reopen a '.dx' file and append new data
314  into it. Hence it is possible, if many time-steps are to be
315  saved, to view intermediate results in OpenDX during the
316  computation.
317  */
318  class dx_export {
319  std::ostream &os;
320  char header[256];
321  bool ascii;
322  const stored_mesh_slice *psl;
323  bool psl_use_merged; /* flag enabled if we merge the points of
324  psl before export */
325  std::unique_ptr<mesh_fem> pmf;
326  dal::bit_vector pmf_dof_used;
327  std::vector<unsigned> pmf_cell_type;
328  std::fstream real_os;
329  dim_type dim_, connections_dim;
330  struct dxSeries {
331  std::string name;
332  std::list<std::string> members;
333  };
334  struct dxObject {
335  std::string name;
336  std::string mesh;
337  };
338  struct dxMesh {
339  unsigned flags;
340  typedef enum { NONE=0, WITH_EDGES=1, STRUCTURE_WRITTEN=2 } flags_t;
341  std::string name;
342  dxMesh() : flags(NONE) {}
343  };
344  std::list<dxObject> objects;
345  std::list<dxSeries> series;
346  std::list<dxMesh> meshes;
347  bool header_written;
348  public:
349  dx_export(const std::string& fname, bool ascii_ = false,
350  bool append_ = false);
351  dx_export(std::ostream &os_, bool ascii_ = false);
352  ~dx_export(); /* the file is not complete until the destructor
353  has been executed */
354  void exporting(const mesh& m, std::string name = std::string());
355  void exporting(const mesh_fem& mf, std::string name = std::string());
356  void exporting(const stored_mesh_slice& sl, bool merge_points = true,
357  std::string name = std::string());
358  /** append edges information (if you want to draw the mesh and are
359  using a refined slice. Should be called just after exporting(..) */
360  void exporting_mesh_edges(bool with_slice_edge = true);
361 
362  /** the header is the second line of text in the exported file,
363  you can put whatever you want -- call this before any write_dataset
364  or write_mesh */
365  void set_header(const std::string& s);
366  void write_mesh();
367  /** add an object (typically the name of a data field) to a
368  'series', i.e. an aggregate of consecutive objects. Using
369  'series' is useful for animations in opendx
370 
371  If 'field_name' corresponds to a data_set whose mesh edges have
372  been exported, a second series called serie_name + '_edges'
373  will be filled, which will allow you to view the mesh edges.
374  */
375  void serie_add_object(const std::string& serie_name,
376  const std::string& object_name);
377  void serie_add_object(const std::string& serie_name)
378  { serie_add_object(serie_name, current_data_name()); }
379  /** return the name of current mesh (use exporting(...) to change
380  the current mesh) */
381  std::string current_mesh_name() { return current_mesh().name; }
382  /** return the name of last written data_set */
383  std::string current_data_name() { return current_data().name; }
384  template<class VECT> void
385  write_point_data(const getfem::mesh_fem &mf,
386  const VECT& U0, std::string name = std::string());
387  template<class VECT> void
388  write_sliced_point_data(const VECT& Uslice,
389  std::string name = std::string());
390  /* TOBEDONE !!!!!!!!!!!
391  template<class VECT> void
392  write_cell_data(const VECT& U, std::string name = std::string());
393  void write_mesh_quality(const mesh &m);*/
394  void write_normals();
395  const stored_mesh_slice& get_exported_slice() const;
396  const mesh_fem& get_exported_mesh_fem() const;
397 
398  private:
399  void init();
400  void reread_metadata();
401  void update_metadata(std::ios::pos_type);
402  void write_series();
403  void serie_add_object_(const std::string &serie_name,
404  const std::string &object_name);
405  void write_separ();
406  std::string default_name(std::string s, int count,
407  const char *default_prefix) {
408  if (s.size() == 0) {
409  std::stringstream ss; ss << default_prefix << count; return ss.str();
410  } else return s;
411  }
412  template<class T> void write_val(T v) {
413  if (ascii) os << " " << v;
414  else os.write((char*)&v, sizeof(T));
415  }
416  static const char* endianness() {
417  static int i=0x12345678;
418  char *p = (char*)&i;
419  if (*p == 0x12) return "msb";
420  else if (*p == 0x78) return "lsb";
421  else return "this is very strange..";
422  }
423  bool new_mesh(std::string &name);
424  std::list<dxMesh>::iterator get_mesh(const std::string& name,
425  bool raise_error = true);
426  std::list<dxObject>::iterator get_object(const std::string& name,
427  bool raise_error = true);
428  dxMesh &current_mesh() {
429  if (meshes.size()) return meshes.back();
430  else GMM_ASSERT1(false, "no mesh!");
431  }
432  dxObject &current_data() {
433  if (objects.size()) return objects.back();
434  else GMM_ASSERT1(false, "no data!");
435  }
436 
437  std::string name_of_pts_array(const std::string &meshname)
438  { return meshname + std::string("_pts"); }
439  std::string name_of_conn_array(const std::string &meshname)
440  { return meshname + std::string("_conn"); }
441  std::string name_of_edges_array(const std::string &meshname)
442  { return meshname + std::string("_edges"); }
443  void check_header();
444  const char *dxname_of_convex_structure(bgeot::pconvex_structure cvs);
445  void write_convex_attributes(bgeot::pconvex_structure cvs);
446  void write_mesh_structure_from_slice();
447  void write_mesh_structure_from_mesh_fem();
448  void write_mesh_edges_from_slice(bool with_slice_edge);
449  void write_mesh_edges_from_mesh();
450  template <class VECT>
451  void smooth_field(const VECT& U, base_vector &sU);
452  template<class VECT>
453  void write_dataset_(const VECT& U, std::string name, bool cell_data=false);
454  };
455 
456  template <class VECT>
457  void dx_export::smooth_field(const VECT& U, base_vector &sU) {
458  size_type Q = gmm::vect_size(U) / psl->nb_points();
459  sU.clear(); sU.resize(Q*psl->nb_merged_nodes());
460  for (size_type i=0; i < psl->nb_merged_nodes(); ++i) {
461  for (size_type j=0; j < psl->merged_point_cnt(i); ++j)
462  for (size_type q=0; q < Q; ++q)
463  sU[i*Q+q] += U[psl->merged_point_nodes(i)[j].pos*Q+q];
464  for (size_type q=0; q < Q; ++q)
465  sU[i*Q+q] /= double(psl->merged_point_cnt(i));
466  }
467  }
468 
469  template<class VECT>
470  void dx_export::write_point_data(const getfem::mesh_fem &mf, const VECT& U,
471  std::string name) {
472  size_type Q = (gmm::vect_size(U) / mf.nb_dof())*mf.get_qdim();
473  if (psl) {
474  std::vector<scalar_type> Uslice(Q*psl->nb_points());
475  psl->interpolate(mf, U, Uslice);
476  write_sliced_point_data(Uslice,name);
477  } else {
478  std::vector<scalar_type> V(pmf->nb_dof() * Q);
479  if (&mf != &(*pmf)) {
480  interpolation(mf, *pmf, U, V);
481  } else gmm::copy(U,V);
482  size_type cnt = 0;
483  for (dal::bv_visitor d(pmf_dof_used); !d.finished(); ++d, ++cnt) {
484  if (cnt != d)
485  for (size_type q=0; q < Q; ++q) {
486  V[cnt*Q + q] = V[d*Q + q];
487  }
488  }
489  V.resize(Q*pmf_dof_used.card());
490  write_dataset_(V, name);
491  }
492  }
493 
494  template<class VECT> void
495  dx_export::write_sliced_point_data(const VECT& Uslice, std::string name) {
496  if (!psl_use_merged)
497  write_dataset_(Uslice, name, false);
498  else {
499  base_vector Umerged; smooth_field(Uslice,Umerged);
500  write_dataset_(Umerged, name, false);
501  }
502  }
503 
504  template<class VECT> void
505  dx_export::write_dataset_(const VECT& U, std::string name, bool cell_data) {
506  write_mesh();
507  objects.push_back(dxObject());
508  name = default_name(name, int(objects.size()), "gf_field");
509  objects.back().name = name;
510  objects.back().mesh = current_mesh_name();
511  size_type nb_val = 0;
512  if (cell_data) {
513  nb_val = psl ? psl->linked_mesh().convex_index().card()
514  : pmf->linked_mesh().convex_index().card();
515  } else {
516  nb_val = psl ? (psl_use_merged ? psl->nb_merged_nodes() : psl->nb_points())
517  : pmf_dof_used.card();
518  }
519  size_type Q = gmm::vect_size(U) / nb_val;
520  GMM_ASSERT1(gmm::vect_size(U) == nb_val*Q,
521  "inconsistency in the size of the dataset: "
522  << gmm::vect_size(U) << " != " << nb_val << "*" << Q);
523 
524  os << "\nobject \"" << name << "_data\" class array type float rank ";
525  if (Q == 1) { os << "0"; } /* scalar data */
526  else if (Q == 4) { os << "2 shape 2 2"; } /* or 2x2 tensor data */
527  else if (Q == 9) { os << "2 shape 3 3"; } /* or 2x2 tensor data */
528  else { os << "1 shape " << Q; } /* fallback: vector data */
529  os << " items " << nb_val;
530  if (!ascii) os << " " << endianness() << " binary";
531  os << " data follows" << endl;
532  for (size_type i=0; i < nb_val*Q; ++i) {
533  write_val(float(U[i]));
534  if (((i+1) % (Q > 1 ? Q : 10)) == 0) write_separ();
535  }
536  write_separ();
537 
538  if (!cell_data)
539  os << "\n attribute \"dep\" string \"positions\"\n";
540  else os << "\n attribute \"dep\" string \"connections\"\n";
541  os << "\n";
542 
543  if (current_mesh().flags & dxMesh::WITH_EDGES) {
544  os << "\nobject \"" << name << "_edges\" class field\n"
545  << " component \"positions\" value \""
546  << name_of_pts_array(current_mesh_name()) << "\"\n"
547  << " component \"connections\" value \""
548  << name_of_conn_array(name_of_edges_array(current_mesh_name()))
549  << "\"\n"
550  << " component \"data\" value \"" << name << "_data\"\n";
551  }
552 
553  /* write footer */
554  os << "\nobject \"" << name << "\" class field\n"
555  << " component \"positions\" value \""
556  << name_of_pts_array(current_mesh_name()) << "\"\n"
557  << " component \"connections\" value \""
558  << name_of_conn_array(current_mesh_name()) << "\"\n"
559  << " component \"data\" value \"" << name << "_data\"\n";
560  }
561 
562  /** @brief POS export.
563 
564  export class to Gmsh post-processing file format.
565 
566  ( http://geuz.org/gmsh )
567 
568  A pos_export can store multiple scalar/vector/tensor fields.
569  */
570 
571  class pos_export {
572  protected:
573  std::ostream& os;
574  char header[256];
575 
576  std::vector<std::vector<float> > pos_pts;
577  std::vector<unsigned> pos_cell_type;
578  std::vector<std::vector<unsigned> > pos_cell_dof;
579 
580  std::unique_ptr<mesh_fem> pmf;
581  const stored_mesh_slice *psl;
582 
583  size_type view;
584  dim_type dim;
585  enum { EMPTY, HEADER_WRITTEN, STRUCTURE_WRITTEN, IN_CELL_DATA } state;
586  std::ofstream real_os;
587 
588  public:
589  typedef enum {
590  POS_PT = 0, // point
591  POS_LN = 1, // line
592  POS_TR = 2, // triangles
593  POS_QU = 3, // quadrangles
594  POS_SI = 4, // tetrahedra
595  POS_HE = 5, // hexahedra
596  POS_PR = 6, // prisms
597  POS_PY = 7 // pyramids
598  } pos_cell_types;
599 
600  pos_export(const std::string& fname);
601  pos_export(std::ostream& osname);
602 
603  void set_header(const std::string& s);
604 
605  void exporting(const mesh& m);
606  void exporting(const mesh_fem& mf);
607  void exporting(const stored_mesh_slice& sl);
608 
609  void write(const mesh& m, const std::string& name="");
610  void write(const mesh_fem& mf, const std::string& name="");
611  void write(const stored_mesh_slice& sl, const std::string& name="");
612 
613  template <class VECT>
614  void write(const mesh_fem& mf,const VECT& U, const std::string& name);
615  template <class VECT>
616  void write(const stored_mesh_slice& sl,const VECT& U, const std::string& name);
617 
618  private:
619  void init();
620  void check_header();
621 
622  template <class VECT>
623  void write(const VECT& V, const size_type qdim_v);
624 
625  template <class VECT>
626  void write_cell(const int& t, const std::vector<unsigned>& dof,
627  const VECT& val);
628  };
629 
630  template <class VECT>
631  void pos_export::write(const mesh_fem& mf,const VECT& U,
632  const std::string& name){
633  check_header();
634  exporting(mf);
635 
636  os << "View \"" << name.c_str() <<"\" {\n";
637 
638  size_type nb_points = mf.nb_dof()/mf.get_qdim();
639  size_type qdim_u = gmm::vect_size(U)/nb_points;
640  if (psl){
641  std::vector<scalar_type> Uslice(psl->nb_points()*qdim_u);
642  psl->interpolate(mf, U, Uslice);
643  qdim_u = gmm::vect_size(Uslice)/psl->nb_points();
644  write(Uslice, qdim_u);
645  }else {
646  std::vector<scalar_type> V(pmf->nb_dof()*qdim_u);
647  if (&mf != &(*pmf)) {
648  interpolation(mf, *pmf, U, V);
649  } else gmm::copy(U,V);
650  /*for (dal::bv_visitor d(pmf_dof_used); !d.finished(); ++d, ++cnt) {
651  if (cnt != d)
652  for (size_type q=0; q < Q; ++q) {
653  V[cnt*Q + q] = V[d*Q + q];
654  }
655  }
656  V.resize(Q*pmf_dof_used.card());*/
657  nb_points = pmf->nb_dof()/pmf->get_qdim();
658  qdim_u = gmm::vect_size(V)/nb_points;
659  write(V, qdim_u);
660  }
661 
662  os << "};\n";
663  os << "View[" << view << "].ShowScale = 1;\n";
664  os << "View[" << view << "].ShowElement = 0;\n";
665  os << "View[" << view << "].DrawScalars = 1;\n";
666  os << "View[" << view << "].DrawVectors = 1;\n";
667  os << "View[" << view++ << "].DrawTensors = 1;\n";
668  }
669 
670  template <class VECT>
671  void pos_export::write(const stored_mesh_slice& sl,const VECT& V,
672  const std::string& name){
673  check_header();
674  exporting(sl);
675 
676  os << "View \"" << name.c_str() <<"\" {\n";
677 
678  size_type qdim_v = gmm::vect_size(V)/psl->nb_points();
679  write(V, qdim_v);
680 
681  os << "};\n";
682  os << "View[" << view << "].ShowScale = 1;\n";
683  os << "View[" << view << "].ShowElement = 0;\n";
684  os << "View[" << view << "].DrawScalars = 1;\n";
685  os << "View[" << view << "].DrawVectors = 1;\n";
686  os << "View[" << view++ << "].DrawTensors = 1;\n";
687  }
688 
689  template <class VECT>
690  void pos_export::write(const VECT& V, const size_type qdim_v) {
691  int t;
692  std::vector<unsigned> cell_dof;
693  std::vector<scalar_type> cell_dof_val;
694  for (size_type cell = 0; cell < pos_cell_type.size(); ++cell) {
695  t = pos_cell_type[cell];
696  cell_dof = pos_cell_dof[cell];
697  cell_dof_val.resize(cell_dof.size()*qdim_v, scalar_type(0));
698  for (size_type i=0; i< cell_dof.size(); ++i)
699  for (size_type j=0; j< qdim_v; ++j)
700  cell_dof_val[i*qdim_v+j] = scalar_type(V[cell_dof[i]*qdim_v+j]);
701  write_cell(t,cell_dof,cell_dof_val);
702  }
703  }
704 
705  template <class VECT>
706  void pos_export::write_cell(const int& t, const std::vector<unsigned>& dof,
707  const VECT& val) {
708  size_type qdim_cell = val.size()/dof.size();
709  size_type dim3D = size_type(-1);
710  if (1==qdim_cell){
711  dim3D = size_type(1);
712  os << "S";
713  } else if (2==qdim_cell || 3==qdim_cell){
714  dim3D = size_type(3);
715  os << "V";
716  } else if (4<=qdim_cell && qdim_cell<=9){
717  dim3D = size_type(9);
718  os << "T";
719  }
720  switch (t){
721  case POS_PT: os << "P("; break; // point
722  case POS_LN: os << "L("; break; // line
723  case POS_TR: os << "T("; break; // triangle
724  case POS_QU: os << "Q("; break; // quadrangle
725  case POS_SI: os << "S("; break; // tetrahedra (simplex)
726  case POS_HE: os << "H("; break; // hexahedra
727  case POS_PR: os << "I("; break; // prism
728  case POS_PY: os << "Y("; break; // pyramid
729  }
730  for (size_type i=0; i<dof.size(); ++i){
731  for(size_type j=0; j<dim; ++j){
732  if(0!=i || 0!=j) os << ",";
733  os << pos_pts[dof[i]][j];
734  }
735  for (size_type j=dim; j<3; ++j){
736  os << ",0.00";
737  }
738  }
739 
740  os << "){";
741  for (size_type i=0; i<dof.size(); ++i){
742  for(size_type j=0; j<qdim_cell; ++j){
743  if(0!=i || 0!=j) os << ",";
744  os << val[i*qdim_cell+j];
745  }
746  for (size_type j=qdim_cell; j< dim3D; ++j){
747  os << ",0.00";
748  }
749  }
750  os << "};\n";
751  }
752 } /* end of namespace getfem. */
753 
754 #endif /* GETFEM_EXPORT_H__ */
getfem::vtk_export::exporting
void exporting(const mesh &m)
should be called before write_*_data
Definition: getfem_export.cc:269
getfem::mesh_fem::get_qdim
virtual dim_type get_qdim() const
Return the Q dimension.
Definition: getfem_mesh_fem.h:312
getfem::vtk_export::set_header
void set_header(const std::string &s)
the header is the second line of text in the exported file, you can put whatever you want – call this...
Definition: getfem_export.cc:387
getfem::dx_export::current_data_name
std::string current_data_name()
return the name of last written data_set
Definition: getfem_export.h:383
getfem::stored_mesh_slice
The output of a getfem::mesh_slicer which has been recorded.
Definition: getfem_mesh_slice.h:47
getfem::stored_mesh_slice::nb_merged_nodes
size_type nb_merged_nodes() const
Return the number of merged nodes in slice.
Definition: getfem_mesh_slice.h:149
bgeot::size_type
size_t size_type
used as the common size type in the library
Definition: bgeot_poly.h:49
getfem::vtk_export::write_sliced_point_data
void write_sliced_point_data(const VECT &Uslice, const std::string &name, size_type qdim=1)
append a new scalar or vector field to .vtk file.
Definition: getfem_export.h:233
getfem::mesh_fem
Describe a finite element method linked to a mesh.
Definition: getfem_mesh_fem.h:148
getfem::stored_mesh_slice::nb_points
size_type nb_points() const
Return the number of nodes in the slice.
Definition: getfem_mesh_slice.h:118
getfem::interpolation
void interpolation(const mesh_fem &mf_source, const mesh_fem &mf_target, const VECTU &U, VECTV &V, int extrapolation=0, double EPS=1E-10, mesh_region rg_source=mesh_region::all_convexes(), mesh_region rg_target=mesh_region::all_convexes())
interpolation/extrapolation of (mf_source, U) on mf_target.
Definition: getfem_interpolation.h:693
getfem
GEneric Tool for Finite Element Methods.
Definition: getfem_accumulated_distro.h:46
bgeot::mesh_structure::convex_index
const dal::bit_vector & convex_index() const
Return the list of valid convex IDs.
Definition: bgeot_mesh_structure.h:91
getfem::dx_export::set_header
void set_header(const std::string &s)
the header is the second line of text in the exported file, you can put whatever you want – call this...
Definition: getfem_export.cc:828
getfem::vtk_export::write_point_data
void write_point_data(const getfem::mesh_fem &mf, const VECT &U0, const std::string &name)
append a new scalar or vector field defined on mf to the .vtk/.vtu file.
Definition: getfem_export.h:201
getfem::dx_export::serie_add_object
void serie_add_object(const std::string &serie_name, const std::string &object_name)
add an object (typically the name of a data field) to a 'series', i.e.
Definition: getfem_export.cc:812
getfem::stored_mesh_slice::interpolate
void interpolate(const getfem::mesh_fem &mf, const V1 &UU, V2 &V) const
Interpolation of a mesh_fem on a slice.
Definition: getfem_mesh_slice.h:245
getfem_mesh_slice.h
Define the class getfem::stored_mesh_slice.
getfem::pos_export
POS export.
Definition: getfem_export.h:571
getfem::vtk_export::write_cell_data
void write_cell_data(const VECT &U, const std::string &name, size_type qdim=1)
export data which is constant over each element.
Definition: getfem_export.h:227
bgeot::pconvex_structure
std::shared_ptr< const convex_structure > pconvex_structure
Pointer on a convex structure description.
Definition: bgeot_convex_structure.h:54
getfem::mesh
Describe a mesh (collection of convexes (elements) and points).
Definition: getfem_mesh.h:95
getfem_interpolation.h
Interpolation of fields from a mesh_fem onto another.
getfem::vtk_export::write_mesh_quality
void write_mesh_quality(const mesh &m)
export a data_set correspounding to measures of quality for each convex of the supplied mesh (which s...
Definition: getfem_export.cc:636
getfem::dx_export::current_mesh_name
std::string current_mesh_name()
return the name of current mesh (use exporting(...) to change the current mesh)
Definition: getfem_export.h:381
getfem::stored_mesh_slice::merged_point_cnt
size_type merged_point_cnt(size_type i_merged) const
Return the number of nodes that were merged to form the merged one.
Definition: getfem_mesh_slice.h:168
getfem::stored_mesh_slice::linked_mesh
const mesh & linked_mesh() const
return a pointer to the original mesh
Definition: getfem_mesh_slice.h:110
getfem::dx_export
A (quite large) class for exportation of data to IBM OpenDX.
Definition: getfem_export.h:318
getfem::mesh_fem::nb_dof
virtual size_type nb_dof() const
Return the total number of degrees of freedom.
Definition: getfem_mesh_fem.h:562
getfem::dx_export::exporting_mesh_edges
void exporting_mesh_edges(bool with_slice_edge=true)
append edges information (if you want to draw the mesh and are using a refined slice.
Definition: getfem_export.cc:1023
getfem::vtk_export
VTK/VTU export.
Definition: getfem_export.h:68