--- /dev/null
+
+ /*=========================================================================
+
+ Program: gdcm
+ Module: $RCSfile: exExplorePresentationState.cxx,v $
+ Language: C++
+ Date: $Date: 2010/09/01 14:40:00 $
+ Version: $Revision: 1.1 $
+
+ Copyright (c) CREATIS (Centre de Recherche et d'Applications en Traitement de
+ l'Image). All rights reserved. See Doc/License.txt or
+ http://www.creatis.insa-lyon.fr/Public/Gdcm/License.html for details.
+
+ This software is distributed WITHOUT ANY WARRANTY; without even
+ the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ PURPOSE. See the above copyright notices for more information.
+
+=========================================================================*/
+
+#include "gdcmFile.h"
+
+#include "gdcmArgMgr.h"
+
+#include "gdcmSeqEntry.h"
+#include "gdcmSQItem.h"
+#include "gdcmDocEntrySet.h"
+//#include "gdcmSerieHelper.h"
+#include "gdcmDirList.h"
+#include "gdcmUtil.h"
+
+typedef struct {
+ // 0020|0013 [IS] [Instance Number]
+ std::string referencedInstanceNumber;
+ // 0004|1500 [CS] [Referenced File ID]
+ std::string referencedFileName;
+} FILEINFO;
+
+
+ GDCM_NAME_SPACE::SeqEntry *CheckIfSequenceExists(GDCM_NAME_SPACE::File *fPS, uint16_t gr, uint16_t el);
+ GDCM_NAME_SPACE::SeqEntry *CheckIfSequenceExists(GDCM_NAME_SPACE::SQItem *si, uint16_t gr, uint16_t el);
+ bool dealWithCurrentFile(const char *PSName);
+ bool dealWithTopLevelItem(GDCM_NAME_SPACE::SQItem* currentItem);
+ bool dealWithEndLevelItem(GDCM_NAME_SPACE::SQItem* currentItem);
+ void displaySeekResult(GDCM_NAME_SPACE::SeqEntry* currentItem, uint16_t g, uint16_t e);
+ bool dealWithSequence(GDCM_NAME_SPACE::SeqEntry* se);
+ std::string dealWithReferencedFile(GDCM_NAME_SPACE::SQItem *si);
+ std::map<std::string, FILEINFO> dealWithDicomDir(const char *dicomdirname);
+
+bool verbose;
+bool PSNameAlreadyShown;
+std::map<std::string, FILEINFO> m;
+std::string currentPSFileName;
+
+
+int main(int argc, char *argv[])
+{
+ START_USAGE(usage)
+ "\n exExplorePresentationState :\n ",
+ FINISH_USAGE
+
+
+ // ----- Initialize Arguments Manager ------
+
+ GDCM_NAME_SPACE::ArgMgr *am = new GDCM_NAME_SPACE::ArgMgr(argc, argv);
+
+ if (am->ArgMgrDefined("usage") || argc == 1)
+ {
+ am->ArgMgrUsage(usage); // Display 'usage'
+ delete am;
+ return 0;
+ }
+
+ if (am->ArgMgrDefined("debug"))
+ GDCM_NAME_SPACE::Debug::DebugOn();
+
+ /*bool */verbose = am->ArgMgrDefined("verbose");
+ bool rec = ( 0 != am->ArgMgrDefined("rec") );
+
+ const char *dirName = am->ArgMgrGetString("dirin");
+ const char *dicomdirname = am->ArgMgrGetString("dicomdir");
+
+ /* if unused Param we give up */
+ if ( am->ArgMgrPrintUnusedLabels() )
+ {
+ am->ArgMgrUsage(usage);
+ delete am;
+ return 0;
+ }
+ delete am; // ------ we don't need Arguments Manager any longer ------
+
+ // ===========================================================================
+ // ========================= Deal with the relevant DICOMDIR =================
+ // ===========================================================================
+
+
+ /*std::map<std::string, std::string> */ m = dealWithDicomDir(dicomdirname);
+
+ // ===========================================================================
+ // ========================= Deal with the Directory holding DICOM images ==
+ // ===========================================================================
+
+ std::cout << " Image Directory Name [" << dirName << "]\n\n" << std::endl;
+
+ GDCM_NAME_SPACE::DirList dirList(dirName,rec); // gets recursively (or not) the file list
+ GDCM_NAME_SPACE::DirListType fileList = dirList.GetFilenames();
+ GDCM_NAME_SPACE::File *f;
+ bool res;
+
+ if (fileList.size() == 0)
+ {
+ std::cout << "No file found in : [" << dirName << "]" << std::endl;
+ }
+
+ for( GDCM_NAME_SPACE::DirListType::iterator it = fileList.begin();
+ it != fileList.end();
+ ++it )
+ {
+
+ currentPSFileName = it->c_str();
+ if (verbose)
+ std::cout << std::endl<<" Start processing :[" << it->c_str() << "]"
+ << std::endl;
+ f = GDCM_NAME_SPACE::File::New();
+ //f->SetLoadMode(loadMode);
+ f->SetFileName( it->c_str() );
+
+ res = f->GDCM_NAME_SPACE::Document::Load();
+
+ if ( !res )
+ {
+ if (verbose)
+ {
+ std::cout << "Cannot process file [" << it->c_str() << "]"
+ << std::endl;
+ std::cout << "Either it doesn't exist, or it's read protected "
+ << std::endl;
+ std::cout << "or it's not a Dicom File, or its 'header' is bugged"
+ << std::endl;
+ std::cout << "use 'PrintFile filein=... debug' "
+ << "to try to guess the pb"
+ << std::endl;
+ }
+ f->Delete();
+ continue;
+ }
+
+ bool resFile = dealWithCurrentFile(it->c_str());
+ if (verbose)
+ std::cout << "\n\n" <<std::endl;
+ //std::cout << "=====================================================[" << it->c_str() << "]==" << resFile << std::endl;
+ //return resFile;
+
+ continue;
+
+ }
+}
+
+
+
+//----------------------------------------------------------------------------------------------------
+bool dealWithCurrentFile(const char *PSName)
+{
+
+ GDCM_NAME_SPACE::File *fPS = GDCM_NAME_SPACE::File::New( );
+ fPS->SetFileName( PSName );
+ fPS->SetMaxSizeLoadEntry(0xffff);
+ bool res2 = fPS->Load();
+
+ if (!res2) {
+ if (verbose)
+ std::cout << "Sorry, " << PSName << " not a gdcm-readable "
+ << "DICOM / ACR File"
+ << std::endl;
+ fPS->Delete();
+ return false;
+ }
+
+ GDCM_NAME_SPACE::SeqEntry *se;
+
+ se = CheckIfSequenceExists( fPS, 0x0070, 0x0001);
+ //displaySeekResult(se, 0x0070, 0x0001);
+ if (!se)
+ {
+ if (verbose)
+ std::cout << "[" << PSName << "] : Hopeless (" << std::hex << 0x0070 << "|" << 0x0001 << std::dec << " doesn't exist...)" <<std::endl;
+ return false;
+ }
+
+ if (verbose){
+ std::cout << "\n\n =========================================================================================" <<std::endl;
+ std::cout << "[" << PSName << "] is a gdcm-readable PresentationState file, "
+ << "that (probabely?) holds one or more 'ROI' within [0070|0001] (Graphic Annotation Sequence)" <<std::endl;
+ std::cout << " =========================================================================================\n\n" <<std::endl;
+ }
+ GDCM_NAME_SPACE::SQItem* currentItem = se->GetFirstSQItem(); // Get the first 'ROI'
+ if (currentItem == NULL)
+ {
+ if (verbose)
+ std::cout << "======== Deal With NOTHING! (Sequence 0070|0001 [Graphic Annotation Sequence] has NO item ?!?) within "
+ << PSName << "]" << std::endl;
+ return false;
+ }
+ int i =0;
+ bool res3;
+ bool finalRes = false;
+ while (currentItem != NULL)
+ {
+ if (verbose)
+ std::cout << "======== Deal With 'ROI' n." << i << std::endl;
+
+ // do what you want with the current 'ROI'
+ res3 = dealWithTopLevelItem(currentItem);
+ if (res3)
+ finalRes = true;
+ //...
+
+ currentItem = se->GetNextSQItem(); // Get the next 'ROI'
+ i++;
+ }
+
+ if (finalRes)
+ std::cout << "=============================(within PS File :[" << PSName << "]\n\n" << std::endl;
+ fPS->Delete();
+
+ if(verbose)
+ std::cout << "\n\n" <<std::endl;
+ return true;
+}
+
+//----------------------------------------------------------------------------------------------------
+
+bool dealWithTopLevelItem(GDCM_NAME_SPACE::SQItem* currentItem)
+{
+ // probably this list should be cleaned up.
+ // (I didn't find the exact architecture of Presentation State)
+ int tabElement[] = { 0x0008, 0x0009, 0x005a, 0x0060, 0x0086,
+ 0x0308, 0x0309, 0x030A, 0x030d, 0x0311, 0x0314,
+ 0x0318, 0x031c, 0x031e, 0x0402, 0x0404, 0x0000 };
+
+ bool finalRes = false;
+ bool res;
+ GDCM_NAME_SPACE::SeqEntry *se;
+
+ se = CheckIfSequenceExists(currentItem, 0x0008, 0x1140);
+ displaySeekResult(se, 0x0008, 0x1140);
+ if (se != 0)
+ {
+ res = dealWithSequence(se);
+ if (!res)
+ return false;
+ }
+
+ for(int i=0; tabElement[i]!=0x0000; i++)
+ {
+ se = CheckIfSequenceExists(currentItem, 0x0070, tabElement[i]);
+ //displaySeekResult(se, 0x0070, tabElement[i]);
+ if (se != 0)
+ {
+ res = dealWithSequence(se);
+ if (res)
+ finalRes = true;
+ }
+ }
+ return (finalRes);
+}
+
+
+//----------------------------------------------------------------------------------------------------
+
+bool dealWithEndLevelItem(GDCM_NAME_SPACE::SQItem* currentItem)
+{
+ // probably this list should be cleaned up, too.
+ // (I didn't find the exact architecture of Presentation State)
+ int tabElement[] = { 0x0008, 0x0009, 0x005a, 0x0060, 0x0086,
+ 0x0308, 0x0309, 0x030A, 0x030d, 0x0311, 0x0314,
+ 0x0318, 0x031c, 0x031e, 0x0402, 0x0404, 0x0000 };
+
+ bool res = false;
+ GDCM_NAME_SPACE::SeqEntry *se;
+
+ se = CheckIfSequenceExists(currentItem, 0x0008, 0x1140);
+ displaySeekResult(se, 0x0008, 0x1140);
+ if (se != 0)
+ {
+ res = true;
+ dealWithSequence(se);
+ }
+
+ for(int i=0; tabElement[i]!=0x0000; i++)
+ {
+ se = CheckIfSequenceExists(currentItem, 0x0070, tabElement[i]);
+ displaySeekResult(se, 0x0070, tabElement[i]);
+ if (se != 0)
+ {
+ res = true;
+ dealWithSequence(se);
+ }
+ }
+ return (res);
+}
+//----------------------------------------------------------------------------------------------------
+
+bool dealWithSequence(GDCM_NAME_SPACE::SeqEntry* se)
+{
+ uint16_t g = se->GetGroup();
+ uint16_t e = se->GetElement();
+ if (verbose)
+ std::cout << std::hex << "\n------------------------ deal with " << g <<"|" << e << std::dec
+ << " " << se->GetName() << std::endl;
+
+ GDCM_NAME_SPACE::SQItem *si = se->GetFirstSQItem();
+ if (!si) {
+ if (verbose)
+ std::cout << "Sequence " << std::hex << g <<"|" << e << std::dec << "has no Item ?!?" << std::endl;
+ return false;
+ }
+ std::string referencedFileUID;
+ //std::cout << "\n============================== [" << currentPSFileName << "] =================" << std::endl;
+ if (g == 0x0008) {
+ if (verbose)
+ si->Print(std::cout);
+ referencedFileUID = dealWithReferencedFile(si);
+// std::cout << " referencedFile UID[" << referencedFileUID <<"]" << std::endl;
+
+ } else if (g == 0x0070) {
+ if (verbose)
+ si->Print(std::cout);
+ } else {
+ if (verbose)
+ std::cout << "Unexpected Group " << std::hex << g << std::hex << std::endl;
+ }
+
+ si = se->GetNextSQItem();
+ if (si)
+ {
+ if (verbose)
+ std::cout << "Sequence " << std::hex << g <<"|" << e << std::dec << "should have only ONE Item ?!?" << std::endl;
+ // if (verbose)
+ // si->Print(std::cout);
+ return false;
+ }
+ return true;
+}
+
+//----------------------------------------------------------------------------------------------------
+
+void displaySeekResult(GDCM_NAME_SPACE::SeqEntry* se, uint16_t g, uint16_t e)
+{
+ if (se)
+ {
+ // std::cout << std::hex << g << "|" << e << std::dec << " [" << se->GetName() << "] exists" <<std::endl;
+ }
+ else
+ {
+ if (verbose)
+ std::cout << " No " << std::hex << g << "|" << e << std::dec << " found" <<std::endl;
+ }
+}
+
+//----------------------------------------------------------------------------------------------------
+
+bool TestPresentationState(GDCM_NAME_SPACE::File *f, GDCM_NAME_SPACE::File *fPS)
+{
+
+/*------------------------------------------------------
+
+0070 0001 SQ 1 Graphic Annotation Sequence
+0070 0008 SQ 1 Text Object Sequence
+0070 0009 SQ 1 Graphic Object Sequence
+0070 005a SQ 1 Displayed Area Selection Sequence
+0070 0060 SQ 1 Graphic Layer Sequence
+0070 0086 SQ 1 Content Creator's Identification Code Sequence
+0070 0308 SQ 1 Registration Sequence
+0070 0309 SQ 1 Matrix Registration Sequence
+0070 030a SQ 1 Matrix Sequence
+0070 030d SQ 1 Registration Type Code Sequence
+0070 0311 SQ 1 Fiducial Identifier Code Sequence
+0070 0314 SQ 1 Used Fiducials Sequence
+0070 0318 SQ 1 Graphic Coordinates Data Sequence
+0070 031c SQ 1 Fiducial Set Sequence
+0070 031e SQ 1 Fiducial Sequence
+0070 0402 SQ 1 Blending Sequence
+0070 0404 SQ 1 Referenced Spatial Registration Sequence
+------------------------------------------------------- */
+
+/*------------------------------------------------------
+Relevant part of Dicom V3 Dict
+
+0070 0000 UL 1 Group Length
+0070 0001 SQ 1 Graphic Annotation Sequence
+0070 0002 CS 1 Graphic Layer
+0070 0003 CS 1 Bounding Box Annotation Units
+0070 0004 CS 1 Anchor Point Annotation Units
+0070 0005 CS 1 Graphic Annotation Units
+0070 0006 ST 1 Unformatted Text Value
+0070 0008 SQ 1 Text Object Sequence
+0070 0009 SQ 1 Graphic Object Sequence
+0070 0010 FL 2 Bounding Box Top Left Hand Corner
+0070 0011 FL 2 Bounding Box Bottom Right Hand Corner
+0070 0012 CS 1 Bounding Box Text Horizontal Justification
+0070 0014 FL 2 Anchor Point
+0070 0015 CS 1 Anchor Point Visibility
+0070 0020 US 1 Graphic Dimensions
+0070 0021 US 1 Number of Graphic Points
+0070 0022 FL 2-2n Graphic Data
+0070 0023 CS 1 Graphic Type
+0070 0024 CS 1 Graphic Filled
+0070 0041 CS 1 Image Horizontal Flip
+0070 0042 US 1 Image Rotation
+0070 0052 SL 2 Displayed Area Top Left Hand Corner
+0070 0053 SL 2 Displayed Area Bottom Right Hand Corner
+0070 005a SQ 1 Displayed Area Selection Sequence
+0070 0060 SQ 1 Graphic Layer Sequence
+0070 0062 IS 1 Graphic Layer Order
+0070 0066 US 1 Graphic Layer Recommended Display Grayscale Value
+0070 0067 US 3 Graphic Layer Recommended Display RGB Value (RET)
+0070 0068 LO 1 Graphic Layer Description
+0070 0080 CS 1 Content Label
+0070 0081 LO 1 Content Description
+0070 0082 DA 1 Presentation Creation Date
+0070 0083 TM 1 Presentation Creation Time
+0070 0084 PN 1 Content Creator's Name
+0070 0086 SQ 1 Content Creator's Identification Code Sequence
+0070 0100 CS 1 Presentation Size Mode
+0070 0101 DS 2 Presentation Pixel Spacing
+0070 0102 IS 2 Presentation Pixel Aspect Ratio
+0070 0103 FL 1 Presentation Pixel Magnification Ratio
+0070 0306 CS 1 Shape Type
+0070 0308 SQ 1 Registration Sequence
+0070 0309 SQ 1 Matrix Registration Sequence
+0070 030a SQ 1 Matrix Sequence
+0070 030c CS 1 Frame of Reference Transformation Matrix Type
+0070 030d SQ 1 Registration Type Code Sequence
+0070 030f ST 1 Fiducial Description
+0070 0310 SH 1 Fiducial Identifier
+0070 0311 SQ 1 Fiducial Identifier Code Sequence
+0070 0312 FD 1 Contour Uncertainty Radius
+0070 0314 SQ 1 Used Fiducials Sequence
+0070 0318 SQ 1 Graphic Coordinates Data Sequence
+0070 031a UI 1 Fiducial UID
+0070 031c SQ 1 Fiducial Set Sequence
+0070 031e SQ 1 Fiducial Sequence
+0070 0401 US 3 Graphic Layer Recommended Display CIELab Value
+0070 0402 SQ 1 Blending Sequence
+0070 0403 FL 1 Relative Opacity
+0070 0404 SQ 1 Referenced Spatial Registration Sequence
+0070 0405 CS 1 Blending Position
+------------------------------------------------------- */
+
+}
+
+// ----------------------------------------------------------------------------------
+
+
+GDCM_NAME_SPACE::SeqEntry *CheckIfSequenceExists( GDCM_NAME_SPACE::File *fPS, uint16_t gr, uint16_t el)
+{
+ GDCM_NAME_SPACE::SeqEntry *se= fPS->GetSeqEntry(gr, el);
+ return se;
+}
+
+// ----------------------------------------------------------------------------------
+
+GDCM_NAME_SPACE::SeqEntry *CheckIfSequenceExists( GDCM_NAME_SPACE::SQItem *si, uint16_t gr, uint16_t el)
+{
+ GDCM_NAME_SPACE::SeqEntry *se= si->GetSeqEntry(gr, el);
+ return se;
+}
+
+// ----------------------------------------------------------------------------------
+
+std::string dealWithReferencedFile(GDCM_NAME_SPACE::SQItem *si)
+{
+ // GDCM_NAME_SPACE::DocEntry *si = GetDocEntry(0x0008, 0x1155);
+
+ // Look for : 0004|1511 [UI] [Referenced SOP Instance UID in File]
+ std::string referencedFileUID = si->GetEntryString(0x0008, 0x1155);
+ // std::cout << " referencedFile UID[" << referencedFileUID <<"]" << std::endl;
+
+ if (verbose)
+ std::cout << "m[" << referencedFileUID << "] = ";
+
+ std::cout << "[" << m[referencedFileUID].referencedInstanceNumber << "] [" << m[referencedFileUID].referencedFileName << "]" << std::endl;
+
+ return referencedFileUID;
+
+}
+
+// ----------------------------------------------------------------------------------
+std::map<std::string, FILEINFO> dealWithDicomDir(const char *dicomdirname)
+{
+ FILEINFO fi;
+ GDCM_NAME_SPACE::File *f;
+ bool res;
+ std::map<std::string, FILEINFO> m;
+
+ std::cout << std::endl<<" Start reading DICOMDIR :[" << dicomdirname << "]"
+ << std::endl;
+
+ f = GDCM_NAME_SPACE::File::New();
+ //f->SetLoadMode(loadMode);
+ f->SetFileName( dicomdirname );
+
+ // Don't load a DicomDir !
+ res = f->GDCM_NAME_SPACE::Document::Load();
+
+ if ( !res )
+ {
+ std::cout << "Cannot process file [" << dicomdirname << "]"
+ << std::endl;
+ std::cout << "Either it doesn't exist, or it's read protected "
+ << std::endl;
+ std::cout << "or it's not a Dicom File, or its 'header' is bugged"
+ << std::endl;
+ std::cout << "use 'PrintFile filein=... debug' "
+ << "to try to guess the pb"
+ << std::endl;
+ f->Delete();
+ /// \TODO : throw an exception
+ return m;;
+ }
+
+ // Get 0004|1220 [SQ] [Directory Record Sequence]
+
+ GDCM_NAME_SPACE::SeqEntry *dsr= f->GetSeqEntry(0x0004,0x1220);
+ if (!dsr)
+ {
+ if (verbose)
+ std::cout << "[" << dicomdirname << "] : Hopeless (" << std::hex << 0x0094 << "|" << 0x01220
+ << std::dec << " -Directory Record Sequence- doesn't exist...)" <<std::endl;
+
+ f->Delete();
+ /// \TODO : throw an exception
+ return m;
+ }
+
+ GDCM_NAME_SPACE::SQItem* currentItem = dsr->GetFirstSQItem(); // Get the first 'ROI'
+ if (currentItem == NULL)
+ {
+ if (verbose)
+ std::cout << "======== Deal With NOTHING! (Sequence 0004|1220 [Directory Record Sequence] has NO item ?!?)" << std::endl;
+ /// \TODO : throw an exception
+ return m;
+ }
+
+ int i =0;
+ while (currentItem != NULL)
+ {
+ // Get 0020|0013 [IS] [Instance Number]
+ fi.referencedInstanceNumber = currentItem->GetEntryString(0x0020, 0x0013);
+
+ // Get 0004|1500 [CS] [Referenced File ID]
+ fi.referencedFileName = currentItem->GetEntryString(0x0004, 0x1500);
+
+ // Get0004|1511 [UI] [Referenced SOP Instance UID in File]
+ std::string referencedFileSopInstanceUID = currentItem->GetEntryString(0x0004, 0x1511);
+
+ m[referencedFileSopInstanceUID] = fi;
+ currentItem = dsr->GetNextSQItem(); // Get the next 'ROI'
+ i++;
+ }
+
+ if (verbose)
+ for(std::map<std::string, FILEINFO>::iterator it = m.begin(); it != m.end(); ++it)
+ {
+ std::cout << "m[" << (*it).first << "] = [" << (*it).second.referencedInstanceNumber << "] [" << (*it).second.referencedFileName << std::endl;
+ }
+
+ return m;
+
+}
git://git.creatis.insa-lyon.fr / gdcm.git / blobdiff