creaImageIO_lib
creaImageIOVtkImageReader.cpp
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1 /*
2 # ---------------------------------------------------------------------
3 #
4 # Copyright (c) CREATIS (Centre de Recherche en Acquisition et Traitement de l'Image
5 # pour la Santé)
6 # Authors : Eduardo Davila, Frederic Cervenansky, Claire Mouton
7 # Previous Authors : Laurent Guigues, Jean-Pierre Roux
8 # CreaTools website : www.creatis.insa-lyon.fr/site/fr/creatools_accueil
9 #
10 # This software is governed by the CeCILL-B license under French law and
11 # abiding by the rules of distribution of free software. You can use,
12 # modify and/ or redistribute the software under the terms of the CeCILL-B
13 # license as circulated by CEA, CNRS and INRIA at the following URL
14 # http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
15 # or in the file LICENSE.txt.
16 #
17 # As a counterpart to the access to the source code and rights to copy,
18 # modify and redistribute granted by the license, users are provided only
19 # with a limited warranty and the software's author, the holder of the
20 # economic rights, and the successive licensors have only limited
21 # liability.
22 #
23 # The fact that you are presently reading this means that you have had
24 # knowledge of the CeCILL-B license and that you accept its terms.
25 # ------------------------------------------------------------------------
26 */
27 
28 
29 #include <creaImageIOVtkImageReader.h>
30 #include <vtkImageReader2.h>
31 
32 #include "boost/filesystem/path.hpp"
33 #if defined(_WIN32)
34 #pragma warning(disable: 4996)
35 #endif
36 
37 namespace creaImageIO{
38  //=====================================================================
39  VtkImageReader::VtkImageReader(vtkImageReader2* r,
40  const std::string& name,
41  const std::string& extensions)
42  : mReader(r), mExtensions(extensions)
43  {
44 
45  //EED 21 mars 2012 FLIP probleme ..PLOP..
46  mReader->FileLowerLeftOff();
47 
48  if (name.size() == 0)
49  {
50  const char *test =mReader->GetDescriptiveName();
51  //warning: comparison with string literal results in unspecified behaviour
52  //if(test != "")
53  std::string emptyString("");
54  if(test != emptyString)
55  {
56  SetName ( "toto");// mReader->GetDescriptiveName());
57  }
58  }
59  else
60  {
61  SetName ( name );
62  }
63 
64 
65  }
66  //=====================================================================
67 
68  //=====================================================================
69  VtkImageReader::~VtkImageReader()
70  {
71 
72  mReader->Delete();
73  }
74  //=====================================================================
75 
76  //=====================================================================
77  bool VtkImageReader::CanRead(const std::string& filename)
78  {
79 
80  return (mReader->CanReadFile(filename.c_str())!=0);
81 /* if(filename != "")
82  {
83  return (mReader->CanReadFile(filename.c_str())!=0);
84  }
85  else
86  {
87  return false;
88  }*/
89  }
90  //=====================================================================
91  void VtkImageReader::getAttributes(const std::string filename,
92  std::map <std::string , std::string> &infos, std::vector<std::string> i_attr)
93  {
94  }
95  //=====================================================================
96  vtkImageData* VtkImageReader::ReadImage(const std::string& filename)
97  {
98  vtkImageData* im = 0;
99  try
100  {
101  printf("EED VtkImageReader::ReadImage Name:%s\n", GetName().c_str() );
102  mReader->SetFileName( filename.c_str() );
103  mReader->Update();
104  im = vtkImageData::New();
105 
106  im->ShallowCopy(mReader->GetOutput());
107 
108 
109 printf("EED ......\n");
110 printf("EED ......\n");
111 printf("EED VtkImageReader::ReadImage line 108 Missing FlipImage for JPEG, PNG, etc\n");
112 printf("EED ......\n");
113 printf("EED ......\n");
114 /*
115  im=FlipImageY(im);
116 
117  if ( (GetName()=="JPEG") || (GetName()=="PNG") )
118  {
119 
120  im->Update();
121  int inputdims[3];
122  im->GetDimensions (inputdims);
123 
124  int nbScalComp = im->GetNumberOfScalarComponents();
125  int scalarSize = im->GetScalarSize();
126  int lineSize = inputdims[0]*scalarSize*nbScalComp;
127  int planeSize = inputdims[1]*lineSize;
128  int volumeSize = inputdims[2]*planeSize;
129  char *pixelsIn = (char *)im->GetScalarPointer();
130  char *pixelsOut = (char *)mImageOut->GetScalarPointer();
131 
132  char *lineIn;
133  char *lineOut;
134  char *debPlanIn;
135  char *debPlanOut;
136  int i,j,k;
137 
138  for(k=0; k<inputdims[2]; k++) // iterate planes
139  {
140  debPlanIn = pixelsIn+k*planeSize;
141  debPlanOut = pixelsOut+k*planeSize;
142  for(j=0; j<inputdims[1]; j++) // iterates rows
143  {
144  lineIn = debPlanIn+j*lineSize;
145  lineOut = debPlanOut+(inputdims[1]-1-j)*lineSize;
146  memcpy(lineOut, lineIn, lineSize);
147  } // for j
148  } // for k
149  } // FLIP : JPEG PNG
150 */
151  }
152  catch (...)
153  {
154  if (im!=0) im->Delete();
155  im = 0;
156  }
157  return im;
158  }
159  //=====================================================================
160 
161  //=====================================================================
162  void SplitExtensionsString ( const std::string& str,
163  const std::string& delimiters,
164  std::vector<std::string>& tokens)
165  {
166  // Skip delimiters at beginning.
167  std::string::size_type lastPos = str.find_first_not_of(delimiters, 0);
168  // Find first delimiter.
169  std::string::size_type pos = str.find_first_of(delimiters, lastPos);
170 
171  while (std::string::npos != pos || std::string::npos != lastPos)
172  {
173  // Found a token, add it to the vector.
174  // SPECIFIC : REMOVE INITIAL DOT (lastPos + 1)
175  tokens.push_back(str.substr(lastPos+1, pos - lastPos));
176  // Skip delimiters. Note the "not_of"
177  lastPos = str.find_first_not_of(delimiters, pos);
178  // Find next delimiter
179  pos = str.find_first_of(delimiters, lastPos);
180  }
181 
182  }
183  //=====================================================================
184 
185  //=====================================================================
186  void VtkImageReader::PushBackExtensions(std::vector<std::string>& v)
187  {
188  std::string ext = mExtensions;
189  if (ext.size()==0) ext = mReader->GetFileExtensions ();
190 
191  SplitExtensionsString(ext," ",v);
192  }
193  //=====================================================================
194 
195 
196 
197  //=====================================================================
198  void VtkImageReader::ReadAttributes(const std::string& filename,
199  std::map<std::string,std::string>& attr)
200  {
201 
202  // Get image dimensions
203  // How to get the image info without loading it in vtk ?
204  mReader->SetFileName(filename.c_str());
205  mReader->Update(); //OpenFile();
206  int ext[6];
207  mReader->GetDataExtent(ext);
208  // Columns
209  char cols[128];
210  sprintf(cols,"%i",ext[1]-ext[0]);
211  // Rows
212  char rows[128];
213  sprintf(rows,"%i",ext[3]-ext[2]);
214  // Planes
215  char planes[128];
216  sprintf(planes,"%i",ext[5]-ext[4]);
217 
218  std::map<std::string,std::string>::iterator i;
219  if ( (i = attr.find("FullFileName")) != attr.end())
220  {
221  i->second = filename;
222  }
223  if ( (i = attr.find("D0004_1500")) != attr.end())
224  {
225  boost::filesystem::path full_path(filename);
226  std::string f = full_path.leaf().string();
227  i->second = f;
228  }
229  if ( (i = attr.find("D0028_0010")) != attr.end())
230  {
231  i->second = rows;
232  }
233  if ( (i = attr.find("D0028_0011")) != attr.end())
234  {
235  i->second = cols;
236  }
237 
238  if ( (i = attr.find("D0028_0012")) != attr.end())
239  {
240  i->second = planes;
241  }
242  if ( (i = attr.find("FullFileDirectory")) != attr.end())
243  {
244  std::string::size_type last_pos = filename.find_last_of("//");
245  i->second = filename.substr(0, last_pos);
246  }
247 
248 
249  }
250  //=====================================================================
251 
252 } // namespace creaImageIO