1 /*=========================================================================
4 Module: $RCSfile: exExtractSegmentedPalette.cxx,v $
6 Date: $Date: 2007/10/03 08:50:48 $
7 Version: $Revision: 1.2 $
9 Copyright (c) CREATIS (Centre de Recherche et d'Applications en Traitement de
10 l'Image). All rights reserved. See Doc/License.txt or
11 http://www.creatis.insa-lyon.fr/Public/Gdcm/License.html for details.
13 This software is distributed WITHOUT ANY WARRANTY; without even
14 the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
15 PURPOSE. See the above copyright notices for more information.
17 =========================================================================*/
21 // http://blog.goo.ne.jp/satomi_takeo/e/3643e5249b2a9650f9e10ef1c830e8b8
22 // I bet the code was compiled on VS6. Make it compile on other platform:
23 // * typedef are not inherited
24 // * need to explicitely add typename keyword
25 // * Uint8 / Uint16 are neither C nor C++
26 // * replace all dcmtk code with identical gdcm code
36 // abstract class for segment.
37 template <typename EntryType>
40 typedef std::map<const EntryType*, const Segment*> SegmentMap;
41 virtual bool Expand(const SegmentMap& instances,
42 std::vector<EntryType>& expanded) const = 0;
43 const EntryType* First() const { return _first; }
44 const EntryType* Last() const { return _last; }
47 typename SegmentMap::key_type,
48 typename SegmentMap::mapped_type
50 operator()(const Segment* segment) const
51 { return std::make_pair(segment->First(), segment); }
54 Segment(const EntryType* first, const EntryType* last) {
55 _first = first; _last = last;
57 const EntryType* _first;
58 const EntryType* _last;
61 // discrete segment (opcode = 0)
62 template <typename EntryType>
63 class DiscreteSegment : public Segment<EntryType> {
65 typedef typename Segment<EntryType>::SegmentMap SegmentMap;
66 DiscreteSegment(const EntryType* first)
67 : Segment<EntryType>(first, first+2+*(first+1)) {}
68 virtual bool Expand(const SegmentMap&,
69 std::vector<EntryType>& expanded) const
71 std::copy(this->_first + 2, this->_last, std::back_inserter(expanded));
76 // linear segment (opcode = 1)
77 template <typename EntryType>
78 class LinearSegment : public Segment<EntryType> {
80 typedef typename Segment<EntryType>::SegmentMap SegmentMap;
81 LinearSegment(const EntryType* first)
82 : Segment<EntryType>(first, first+3) {}
83 virtual bool Expand(const SegmentMap&,
84 std::vector<EntryType>& expanded) const
86 if ( expanded.empty() ) {
87 // linear segment can't be the first segment.
90 EntryType length = *(this->_first + 1);
91 EntryType y0 = expanded.back();
92 EntryType y1 = *(this->_first + 2);
94 for ( EntryType i = 0; i <length; ++i ) {
96 = static_cast<double>(y0)
97 + (static_cast<double>(i)/static_cast<double>(length)) * y01;
98 EntryType value_int = static_cast<EntryType>(value_float + 0.5);
99 expanded.push_back(value_int);
105 // indirect segment (opcode = 2)
106 template <typename EntryType>
107 class IndirectSegment : public Segment<EntryType> {
109 typedef typename Segment<EntryType>::SegmentMap SegmentMap;
110 IndirectSegment(const EntryType* first)
111 : Segment<EntryType>(first, first+2+4/sizeof(EntryType)) {}
112 virtual bool Expand(const SegmentMap& instances,
113 std::vector<EntryType>& expanded) const
115 if ( instances.empty() ) {
116 // some other segments are required as references.
119 const EntryType* first_segment = instances.begin()->first;
120 const unsigned short* pOffset
121 = reinterpret_cast<const unsigned short*>(this->_first + 2);
122 unsigned long offsetBytes
123 = (*pOffset) | (static_cast<unsigned long>(*(pOffset + 1)) << 16);
124 const EntryType* copied_part_head
125 = first_segment + offsetBytes / sizeof(EntryType);
126 typename SegmentMap::const_iterator ppHeadSeg = instances.find(copied_part_head);
127 if ( ppHeadSeg == instances.end() ) {
128 // referred segment not found
131 EntryType nNumCopies = *(this->_first + 1);
132 typename SegmentMap::const_iterator ppSeg = ppHeadSeg;
133 while ( std::distance(ppHeadSeg, ppSeg) <nNumCopies ) {
134 assert( ppSeg != instances.end() );
135 ppSeg->second->Expand(instances, expanded);
142 template <typename EntryType>
143 void ExpandPalette(const EntryType* raw_values, uint32_t length,
144 std::vector<EntryType>& palette)
146 typedef std::deque<Segment<EntryType>*> SegmentList;
147 SegmentList segments;
148 const EntryType* raw_seg = raw_values;
149 while ( (std::distance(raw_values, raw_seg) * sizeof(EntryType)) <length ) {
150 Segment<EntryType>* segment = NULL;
151 if ( *raw_seg == 0 ) {
152 segment = new DiscreteSegment<EntryType>(raw_seg);
153 } else if ( *raw_seg == 1 ) {
154 segment = new LinearSegment<EntryType>(raw_seg);
155 } else if ( *raw_seg == 2 ) {
156 segment = new IndirectSegment<EntryType>(raw_seg);
159 segments.push_back(segment);
160 raw_seg = segment->Last();
166 typename Segment<EntryType>::SegmentMap instances;
167 std::transform(segments.begin(), segments.end(),
168 std::inserter(instances, instances.end()), typename Segment<EntryType>::ToMap());
169 typename SegmentList::iterator ppSeg = segments.begin();
170 typename SegmentList::iterator endOfSegments = segments.end();
171 for ( ; ppSeg != endOfSegments; ++ppSeg ) {
172 (*ppSeg)->Expand(instances, palette);
174 ppSeg = segments.begin();
175 for ( ; ppSeg != endOfSegments; ++ppSeg ) {
180 void ReadPalette(GDCM_NAME_SPACE::File* pds, const GDCM_NAME_SPACE::TagKey& descriptor,
181 const GDCM_NAME_SPACE::TagKey& segment)
183 int desc_values[3] = {};
184 unsigned long count = 0;
185 //if ( pds->findAndGetUint16Array(descriptor, desc_values, &count).good() )
186 std::string desc_values_str = pds->GetEntryString(descriptor.GetGroup(), descriptor.GetElement() );
187 count = sscanf( desc_values_str.c_str(), "%d\\%d\\%d", desc_values, desc_values+1, desc_values+2 );
189 assert( count == 3 );
190 unsigned int num_entries = desc_values[0];
191 if ( num_entries == 0 ) {
192 num_entries = 0x10000;
194 int min_pixel_value = desc_values[1];
195 unsigned int entry_size = desc_values[2];
196 assert( entry_size == 8 || entry_size == 16 );
197 //DcmElement* pe = NULL;
198 GDCM_NAME_SPACE::DataEntry* pe = NULL;
200 pe = pds->GetDataEntry(segment.GetGroup(), segment.GetElement() ); {
201 //if ( pds->findAndGetElement(segment, pe).good() )
202 unsigned long length = pe->GetLength();
203 if ( entry_size == 8 ) {
204 uint8_t* segment_values = NULL;
205 //if ( pe->getUint8Array(segment_values).good() )
206 segment_values = (uint8_t*)pe->GetBinArea(); {
207 std::vector<uint8_t> palette;
208 palette.reserve(num_entries);
209 ExpandPalette(segment_values, length, palette);
211 } else if ( entry_size == 16 ) {
212 uint16_t* segment_values = NULL;
213 segment_values = (uint16_t*)pe->GetBinArea(); {
214 //if ( pe->getUint16Array(segment_values).good() )
215 std::vector<uint16_t> palette;
216 palette.reserve(num_entries);
217 ExpandPalette(segment_values, length, palette);
218 std::copy(palette.begin(), palette.end(),
219 std::ostream_iterator<uint16_t>(std::cout, "\n"));
228 int main(int argc, char* argv[])
234 // OFString filename(argv[1]);
235 // if ( ff.loadFile(filename.c_str()).good() ) {
236 // DcmDataset* pDataset = ff.getDataset();
237 // assert( pDataset );
239 // if ( pDataset->findAndGetOFString(DCM_PhotometricInterpretation, pi).good()
240 // && pi == OFString("PALETTE COLOR") ) {
241 // ReadPalette(pDataset, DCM_RedPaletteColorLookupTableDescriptor,
242 // DCM_SegmentedRedPaletteColorLookupTableData);
243 // ReadPalette(pDataset, DCM_GreenPaletteColorLookupTableDescriptor,
244 // DCM_SegmentedGreenPaletteColorLookupTableData);
245 // ReadPalette(pDataset, DCM_BluePaletteColorLookupTableDescriptor,
246 // DCM_SegmentedBluePaletteColorLookupTableData);
250 GDCM_NAME_SPACE::File *f = GDCM_NAME_SPACE::File::New();
251 f->SetFileName( argv[1] );
252 bool res = f->Load();
253 f->Print( std::cout );
254 GDCM_NAME_SPACE::TagKey DCM_RedPaletteColorLookupTableDescriptor (0x0028, 0x1101);
255 GDCM_NAME_SPACE::TagKey DCM_GreenPaletteColorLookupTableDescriptor (0x0028, 0x1102);
256 GDCM_NAME_SPACE::TagKey DCM_BluePaletteColorLookupTableDescriptor (0x0028, 0x1103);
258 GDCM_NAME_SPACE::TagKey DCM_SegmentedRedPaletteColorLookupTableData (0x0028, 0x1221);
259 GDCM_NAME_SPACE::TagKey DCM_SegmentedGreenPaletteColorLookupTableData (0x0028, 0x1222);
260 GDCM_NAME_SPACE::TagKey DCM_SegmentedBluePaletteColorLookupTableData (0x0028, 0x1223);
263 // TODO need to check file is indeed PALETTE COLOR:
264 ReadPalette(f, DCM_RedPaletteColorLookupTableDescriptor,
265 DCM_SegmentedRedPaletteColorLookupTableData);
266 ReadPalette(f, DCM_GreenPaletteColorLookupTableDescriptor,
267 DCM_SegmentedGreenPaletteColorLookupTableData);
268 ReadPalette(f, DCM_BluePaletteColorLookupTableDescriptor,
269 DCM_SegmentedBluePaletteColorLookupTableData);