src2/creaImageIOTreeDescriptor.cpp

   1 #include <creaImageIOTreeDescriptor.h>
   2 #include <boost/algorithm/string/split.hpp>
   3 #include <boost/algorithm/string/replace.hpp>
   4 #include <creaImageIOSystem.h>
   5 #include <boost/filesystem.hpp>
   6
   7
   8
   9
  10
  11 namespace creaImageIO
  12 {
  13
  14   namespace tree
  15   {
  16
  17     //==================================================================
  18     /// The attribute is hidden (not visible to user)
  19     const unsigned int AttributeDescriptor::PRIVATE = 1;
  20     /// The attribute enters in unique identifier constitution
  21     const unsigned int AttributeDescriptor::IDENTIFIER = 2;
  22     const unsigned int AttributeDescriptor::LABEL = 4;
  23     //==================================================================
  24
  25     //==================================================================
  26     Descriptor::Descriptor()
  27     {
  28       CreateLevel0Descriptor();
  29     }
  30     //==================================================================
  31
  32    //==================================================================
  33     Descriptor::~Descriptor()
  34     {
  35     }
  36     //==================================================================
  37
  38     //==================================================================
  39     void Descriptor::CreateLevel0Descriptor()
  40     {
  41       Add(LevelDescriptor("Root"));
  42     }
  43     //==================================================================
  44
  45     //==================================================================
  46     /// Creates the default descriptor
  47     void Descriptor::CreateDefault()
  48     {
  49       // clears the existing one
  50       Clear();
  51
  52       // Creates the level 0 descriptor
  53       CreateLevel0Descriptor();
  54       // Creates the attribute "Name"
  55       Add(AttributeDescriptor("Name","Name",
  56                               AttributeDescriptor::LABEL),0);
  57
  58       // Patient level
  59       Add(LevelDescriptor("Patient"));
  60           Add(AttributeDescriptor("NumberOfChildren","#Series",0),1);   // Number of Series
  61       Add(AttributeDescriptor(0x0010,0x0010,   // Patient name
  62                               AttributeDescriptor::LABEL),1);
  63       Add(AttributeDescriptor(0x0010,0x0040),1); // Patient sex
  64       Add(AttributeDescriptor(0x0010,0x0030),1); // Patient birthday
  65       Add(AttributeDescriptor(0x0010,0x0020,   // Patient ID
  66                               AttributeDescriptor::IDENTIFIER),1);
  67
  68       // Study-series level
  69       Add(LevelDescriptor("Series"));
  70           Add(AttributeDescriptor("NumberOfChildren","#Images",0),2);   // Number of images
  71       Add(AttributeDescriptor(0x0008,0x0060,    // Modality
  72                               AttributeDescriptor::LABEL),2);
  73       Add(AttributeDescriptor(0x0008,0x1030),2); // Study Description
  74       Add(AttributeDescriptor(0x0008,0x103E),2); // Description
  75       Add(AttributeDescriptor(0x0008,0x0080),2); // Institution Name
  76       Add(AttributeDescriptor(0x0008,0x0081),2); // Institution Adress
  77           Add(AttributeDescriptor(0x0008,0x1010),2); // Station Name
  78       Add(AttributeDescriptor(0x0008,0x1048),2); // Physician of Record
  79       Add(AttributeDescriptor(0x0008,0x1050),2); // Performing Physician's Name
  80       Add(AttributeDescriptor(0x0018,0x1030),2); // Protocol Name
  81
  82       Add(AttributeDescriptor(0x0020,0x0010),2); // Study ID
  83       Add(AttributeDescriptor(0x0008,0x0020),2); // Study Date
  84       Add(AttributeDescriptor(0x0008,0x0030),2); // Study Time
  85       Add(AttributeDescriptor(0x0008,0x0050),2); // Study Accession Number
  86       Add(AttributeDescriptor(0x0008,0x0005),2); // Specific character set
  87       Add(AttributeDescriptor(0x0008,0x0021),2); // Series Date
  88       Add(AttributeDescriptor(0x0008,0x0031),2); // Series time
  89
  90       Add(AttributeDescriptor(0x0020,0x000D   // Study Instance UID
  91                                                     ),2);//AttributeDescriptor::IDENTIFIER),2);
  92       Add(AttributeDescriptor(0x0020,0x000E,   // Series Instance UID
  93                                                     AttributeDescriptor::IDENTIFIER),2);
  94       // |
  95       //                                                    AttributeDescriptor::LABEL),2);
  96
  97
  98       // Image level
  99       Add(LevelDescriptor("Image"));
 100
 101       Add(AttributeDescriptor(0x0020,0x0013),3); // Image Number
 102
 103       Add(AttributeDescriptor(0x0028,0x0010),3); // Rows
 104       Add(AttributeDescriptor(0x0028,0x0011),3); // Columns
 105       Add(AttributeDescriptor(0x0028,0x0012),3); // Planes
 106       Add(AttributeDescriptor(0x0028,0x0002),3); // Sample per pixels
 107       Add(AttributeDescriptor(0x0028,0x0008),3); // Number of Frames
 108       Add(AttributeDescriptor(0x0028,0x0004),3); // Photometric Interpretation
 109       Add(AttributeDescriptor(0x0028,0x0103),3); // Pixel Representation
 110
 111       Add(AttributeDescriptor(0x0020,0x0032),3); // Image Position Patient
 112       Add(AttributeDescriptor(0x0020,0x0037),3); // Image Orientation Patient
 113       Add(AttributeDescriptor(0x0020,0x1041),3); // Slice Location
 114       Add(AttributeDescriptor(0x0028,0x0006),3); // Planar Configuration
 115
 116       Add(AttributeDescriptor(0x0028,0x0030),3); // Pixel Spacing
 117       Add(AttributeDescriptor(0x0028,0x0100),3); // AlocatedBits
 118       Add(AttributeDescriptor(0x0028,0x0101),3); // StoredBits
 119
 120       Add(AttributeDescriptor(0x0008,0x0008),3); // Image Type
 121       Add(AttributeDescriptor(0x0008,0x0023),3); // Content Date
 122       Add(AttributeDescriptor(0x0008,0x0033),3); // Content Time
 123
 124       Add(AttributeDescriptor(0x0020,0x4000),3); // Image Comments
 125
 126       Add(AttributeDescriptor(0x0004,0x1500,   // File Name
 127                                                     AttributeDescriptor::LABEL),3);
 128       Add(AttributeDescriptor(0x0028,0x1052),3); // Rescale Intercept
 129       Add(AttributeDescriptor(0x0028,0x1053),3); // Rescale Slope
 130
 131       Add(AttributeDescriptor(0x0050,0x0004),3); // Calibration Image
 132
 133       Add(AttributeDescriptor(0x0020,0x0052   // Frame Reference UID
 134                                                     ),3);
 135       Add(AttributeDescriptor(0x0008,0x0016),3); // SOP Class UID
 136       Add(AttributeDescriptor("FullFileName",  // Full file name
 137                                                     "Full file name",
 138                                                     AttributeDescriptor::IDENTIFIER),3);
 139
 140
 141     }
 142
 143         //////////////////////////////////////////////////////////////
 144         // create a descriptor (name, attributes...) from a file)       //
 145         // @param : file path                                                                           //
 146         // return : -                                                                                           //
 147         //////////////////////////////////////////////////////////////
 148         void Descriptor::createDescriptorfromFile(std::string &i_name)
 149         {
 150                 Clear();
 151
 152                 // read file and put in buffer
 153                 std::ifstream i_file(i_name.c_str());
 154                 std::stringstream buffer;
 155                 buffer << i_file.rdbuf();
 156                 std::string line;
 157                 bool bname;
 158                 int ilevel = -1;
 159
 160
 161                 while(std::getline(buffer, line))
 162                 {
 163                         if(line =="<level>")
 164                         {       //increment levels.
 165                                 ilevel++;
 166                                 bname = true;
 167                         }
 168                         else if(bname)
 169                         {
 170                                 // For each level, a name to describe it
 171                                 Add(LevelDescriptor(line));
 172                                 bname = false;
 173                         }
 174                         else
 175                         {
 176                                 // split line to find all tags
 177                                 std::vector<std::string> descriptors;
 178                                 std::string separator = " ";
 179                                 std::string::size_type last_pos = line.find_first_not_of(separator);
 180                                 //find first separator
 181                                 std::string::size_type pos = line.find_first_of(separator, last_pos);
 182                                 while(std::string::npos != pos || std::string::npos != last_pos)
 183                                 {
 184                                         descriptors.push_back(line.substr(last_pos, pos - last_pos));
 185                                         last_pos = line.find_first_not_of(separator, pos);
 186                                         pos = line.find_first_of(separator, last_pos);
 187                                 }
 188
 189                                 // By default, the last tag is at zero and not recorded but if take in count
 190                                 unsigned int flag = 0;
 191                                 if(descriptors.size() == 4)
 192                                 {
 193                                         std::stringstream val;
 194                                         val << std::dec << descriptors[3];
 195                                         val>> flag;
 196                                 }
 197
 198                                 // if Dicom tag, use "group" and "element" descriptor
 199                                 if(descriptors[0] == "D")
 200                                 {       std::stringstream val, val2;
 201                                         unsigned short group;
 202                                         unsigned short element;
 203                                         val <<   std::dec << descriptors[1] ;
 204                                         val >> std::hex >> group;
 205                                         val2 << std::dec <<  descriptors[2];
 206                                         val2 >> std::hex >> element;
 207                                         Add(AttributeDescriptor( group,element,flag), ilevel);
 208                                 }
 209                                 else // "O" means if user's own tag.
 210                                 {       boost::algorithm::replace_all(descriptors[2],"_"," ");
 211                                         Add(AttributeDescriptor( descriptors[1].c_str(),descriptors[2].c_str(),flag), ilevel);
 212                                 }
 213                         }
 214                 }
 215         }
 216
 217
 218     //==================================================================
 219
 220     //==================================================================
 221     /// Adds a LevelDescriptor at the end of the list
 222     void Descriptor::Add(const LevelDescriptor& d)
 223     {
 224       mLevelDescriptorList.push_back(d);
 225     }
 226     //==================================================================
 227
 228     //==================================================================
 229     /// Adds an AttributeDescriptor to level l
 230     void Descriptor::Add(const AttributeDescriptor& d, int l)
 231     {
 232       mLevelDescriptorList[l].Add(d);
 233       // TO DO : update DicomTagToName and NameToDicomTag map
 234     }
 235     //==================================================================
 236
 237     //==================================================================
 238     /// Clears the Descriptor
 239     void Descriptor::Clear()
 240     {
 241       mLevelDescriptorList.clear();
 242     }
 243     //==================================================================
 244
 245     //==================================================================
 246     /// Builds the key to value map of all the attributes of the tree
 247     void Descriptor::BuildAttributeMap( std::map<std::string,std::string>& map ) const
 248     {
 249       map.clear();
 250       LevelDescriptorListType::const_iterator l;
 251       for (l = GetLevelDescriptorList().begin();
 252            l!= GetLevelDescriptorList().end();
 253            ++l)
 254         {
 255           LevelDescriptor::AttributeDescriptorListType::const_iterator a;
 256           for (a = l->GetAttributeDescriptorList().begin();
 257                a!= l->GetAttributeDescriptorList().end();
 258                ++a)
 259             {
 260               map[a->GetKey()]="";
 261             }
 262         }
 263     }
 264
 265   }
 266 }