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 #include <fstream>
   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         /// The attribute can be edited
  23         const unsigned int AttributeDescriptor::EDITABLE = 3;
  24     const unsigned int AttributeDescriptor::LABEL = 4;
  25     //==================================================================
  26
  27     //==================================================================
  28     Descriptor::Descriptor()
  29     {
  30       CreateLevel0Descriptor();
  31     }
  32     //==================================================================
  33
  34    //==================================================================
  35     Descriptor::~Descriptor()
  36     {
  37     }
  38     //==================================================================
  39
  40     //==================================================================
  41     void Descriptor::CreateLevel0Descriptor()
  42     {
  43       Add(LevelDescriptor("Root"));
  44     }
  45     //==================================================================
  46
  47     //==================================================================
  48     /// Creates the default descriptor
  49     void Descriptor::CreateDefault()
  50     {
  51       // clears the existing one
  52       Clear();
  53
  54       // Creates the level 0 descriptor
  55       CreateLevel0Descriptor();
  56       // Creates the attribute "Name"
  57       Add(AttributeDescriptor("Name","Name",
  58                               AttributeDescriptor::LABEL),0);
  59
  60       // Patient level
  61       Add(LevelDescriptor("Patient"));
  62           Add(AttributeDescriptor("NumberOfChildren","#Series",0),1);   // Number of Series
  63       Add(AttributeDescriptor(0x0010,0x0010,   // Patient name
  64                               AttributeDescriptor::LABEL),1);
  65       Add(AttributeDescriptor(0x0010,0x0040),1); // Patient sex
  66       Add(AttributeDescriptor(0x0010,0x0030),1); // Patient birthday
  67       Add(AttributeDescriptor(0x0010,0x0020,   // Patient ID
  68                               AttributeDescriptor::IDENTIFIER),1);
  69
  70       // Study-series level
  71       Add(LevelDescriptor("Series"));
  72           Add(AttributeDescriptor("NumberOfChildren","#Images",0),2);   // Number of images
  73       Add(AttributeDescriptor(0x0008,0x0060,    // Modality
  74                               AttributeDescriptor::LABEL),2);
  75       Add(AttributeDescriptor(0x0008,0x1030),2); // Study Description
  76       Add(AttributeDescriptor(0x0008,0x103E),2); // Description
  77       Add(AttributeDescriptor(0x0008,0x0080),2); // Institution Name
  78       Add(AttributeDescriptor(0x0008,0x0081),2); // Institution Adress
  79           Add(AttributeDescriptor(0x0008,0x1010),2); // Station Name
  80       Add(AttributeDescriptor(0x0008,0x1048),2); // Physician of Record
  81       Add(AttributeDescriptor(0x0008,0x1050),2); // Performing Physician's Name
  82       Add(AttributeDescriptor(0x0018,0x1030),2); // Protocol Name
  83
  84       Add(AttributeDescriptor(0x0020,0x0010),2); // Study ID
  85       Add(AttributeDescriptor(0x0008,0x0020),2); // Study Date
  86       Add(AttributeDescriptor(0x0008,0x0030),2); // Study Time
  87       Add(AttributeDescriptor(0x0008,0x0050),2); // Study Accession Number
  88       Add(AttributeDescriptor(0x0008,0x0005),2); // Specific character set
  89       Add(AttributeDescriptor(0x0008,0x0021),2); // Series Date
  90       Add(AttributeDescriptor(0x0008,0x0031),2); // Series time
  91
  92       Add(AttributeDescriptor(0x0020,0x000D   // Study Instance UID
  93                                                     ),2);//AttributeDescriptor::IDENTIFIER),2);
  94       Add(AttributeDescriptor(0x0020,0x000E,   // Series Instance UID
  95                                                     AttributeDescriptor::IDENTIFIER),2);
  96       // |
  97       //                                                    AttributeDescriptor::LABEL),2);
  98
  99
 100       // Image level
 101       Add(LevelDescriptor("Image"));
 102
 103       Add(AttributeDescriptor(0x0020,0x0013),3); // Image Number
 104
 105       Add(AttributeDescriptor(0x0028,0x0010),3); // Rows
 106       Add(AttributeDescriptor(0x0028,0x0011),3); // Columns
 107       Add(AttributeDescriptor(0x0028,0x0012),3); // Planes
 108       Add(AttributeDescriptor(0x0028,0x0002),3); // Sample per pixels
 109       Add(AttributeDescriptor(0x0028,0x0008),3); // Number of Frames
 110       Add(AttributeDescriptor(0x0028,0x0004),3); // Photometric Interpretation
 111       Add(AttributeDescriptor(0x0028,0x0103),3); // Pixel Representation
 112
 113       Add(AttributeDescriptor(0x0020,0x0032),3); // Image Position Patient
 114       Add(AttributeDescriptor(0x0020,0x0037),3); // Image Orientation Patient
 115       Add(AttributeDescriptor(0x0020,0x1041),3); // Slice Location
 116       Add(AttributeDescriptor(0x0028,0x0006),3); // Planar Configuration
 117
 118       Add(AttributeDescriptor(0x0028,0x0030),3); // Pixel Spacing
 119       Add(AttributeDescriptor(0x0028,0x0100),3); // AlocatedBits
 120       Add(AttributeDescriptor(0x0028,0x0101),3); // StoredBits
 121
 122       Add(AttributeDescriptor(0x0008,0x0008),3); // Image Type
 123       Add(AttributeDescriptor(0x0008,0x0023),3); // Content Date
 124       Add(AttributeDescriptor(0x0008,0x0033),3); // Content Time
 125
 126       Add(AttributeDescriptor(0x0020,0x4000),3); // Image Comments
 127
 128       Add(AttributeDescriptor(0x0004,0x1500,   // File Name
 129                                                     AttributeDescriptor::LABEL),3);
 130       Add(AttributeDescriptor(0x0028,0x1052),3); // Rescale Intercept
 131       Add(AttributeDescriptor(0x0028,0x1053),3); // Rescale Slope
 132
 133       Add(AttributeDescriptor(0x0050,0x0004),3); // Calibration Image
 134
 135       Add(AttributeDescriptor(0x0020,0x0052   // Frame Reference UID
 136                                                     ),3);
 137       Add(AttributeDescriptor(0x0008,0x0016),3); // SOP Class UID
 138       Add(AttributeDescriptor("FullFileName",  // Full file name
 139                                                     "Full file name",
 140                                                     AttributeDescriptor::IDENTIFIER),3);
 141
 142
 143     }
 144
 145         //////////////////////////////////////////////////////////////
 146         // create a descriptor (name, attributes...) from a file)       //
 147         // @param : file path                                                                           //
 148         // return : -                                                                                           //
 149         //////////////////////////////////////////////////////////////
 150         void Descriptor::createDescriptorfromFile(const std::string &i_name)
 151         {
 152                 Clear();
 153
 154                 // read file and put in buffer
 155                 std::ifstream i_file(i_name.c_str());
 156                 std::stringstream buffer;
 157                 buffer << i_file.rdbuf();
 158                 std::string line;
 159                 bool bname;
 160                 int ilevel = -1;
 161
 162
 163                 while(std::getline(buffer, line))
 164                 {
 165                         if(line =="<level>")
 166                         {       //increment levels.
 167                                 ilevel++;
 168                                 bname = true;
 169                         }
 170                         else if(bname)
 171                         {
 172                                 // For each level, a name to describe it
 173                                 Add(LevelDescriptor(line));
 174                                 bname = false;
 175                         }
 176                         else
 177                         {
 178                                 // split line to find all tags
 179                                 std::vector<std::string> descriptors;
 180                                 std::string separator = " ";
 181                                 std::string::size_type last_pos = line.find_first_not_of(separator);
 182                                 //find first separator
 183                                 std::string::size_type pos = line.find_first_of(separator, last_pos);
 184                                 while(std::string::npos != pos || std::string::npos != last_pos)
 185                                 {
 186                                         descriptors.push_back(line.substr(last_pos, pos - last_pos));
 187                                         last_pos = line.find_first_not_of(separator, pos);
 188                                         pos = line.find_first_of(separator, last_pos);
 189                                 }
 190
 191                                 // By default, the last tag is at zero and not recorded but if take in count
 192                                 unsigned int flag = 0;
 193                                 if(descriptors.size() == 4)
 194                                 {
 195                                         std::stringstream val;
 196                                         val << std::dec << descriptors[3];
 197                                         val>> flag;
 198                                 }
 199
 200                                 // if Dicom tag, use "group" and "element" descriptor
 201                                 if(descriptors[0] == "D")
 202                                 {       std::stringstream val, val2;
 203                                         unsigned short group;
 204                                         unsigned short element;
 205                                         val <<   std::dec << descriptors[1] ;
 206                                         val >> std::hex >> group;
 207                                         val2 << std::dec <<  descriptors[2];
 208                                         val2 >> std::hex >> element;
 209                                         Add(AttributeDescriptor( group,element,flag), ilevel);
 210                                 }
 211                                 else // "O" means if user's own tag.
 212                                 {       boost::algorithm::replace_all(descriptors[2],"_"," ");
 213                                         Add(AttributeDescriptor( descriptors[1].c_str(),descriptors[2].c_str(),flag), ilevel);
 214                                 }
 215                         }
 216                 }
 217         }
 218
 219
 220     //==================================================================
 221
 222     //==================================================================
 223     /// Adds a LevelDescriptor at the end of the list
 224     void Descriptor::Add(const LevelDescriptor& d)
 225     {
 226       mLevelDescriptorList.push_back(d);
 227     }
 228     //==================================================================
 229
 230     //==================================================================
 231     /// Adds an AttributeDescriptor to level l
 232     void Descriptor::Add(const AttributeDescriptor& d, int l)
 233     {
 234       mLevelDescriptorList[l].Add(d);
 235       // TO DO : update DicomTagToName and NameToDicomTag map
 236     }
 237     //==================================================================
 238
 239     //==================================================================
 240     /// Clears the Descriptor
 241     void Descriptor::Clear()
 242     {
 243       mLevelDescriptorList.clear();
 244     }
 245     //==================================================================
 246
 247     //==================================================================
 248     /// Builds the key to value map of all the attributes of the tree
 249     void Descriptor::BuildAttributeMap( std::map<std::string,std::string>& map ) const
 250     {
 251       map.clear();
 252       LevelDescriptorListType::const_iterator l;
 253       for (l = GetLevelDescriptorList().begin();
 254            l!= GetLevelDescriptorList().end();
 255            ++l)
 256         {
 257           LevelDescriptor::AttributeDescriptorListType::const_iterator a;
 258           for (a = l->GetAttributeDescriptorList().begin();
 259                a!= l->GetAttributeDescriptorList().end();
 260                ++a)
 261             {
 262               map[a->GetKey()]="";
 263             }
 264         }
 265     }
 266
 267   }
 268 }