X-Git-Url: https://git.creatis.insa-lyon.fr/pubgit/?a=blobdiff_plain;f=Example%2FPrintFile.cxx;h=2ed087c95aae4f3d5b8a75a5f59453f388b53881;hb=e7a642c06e4cdcfdbaf024090754283ccc564408;hp=2064640f10f4b4d6af75d68d432c2a966664767c;hpb=ab1bb059f09bb3525584be968c316fe8060383fb;p=gdcm.git diff --git a/Example/PrintFile.cxx b/Example/PrintFile.cxx index 2064640f..2ed087c9 100644 --- a/Example/PrintFile.cxx +++ b/Example/PrintFile.cxx @@ -3,8 +3,8 @@ Program: gdcm Module: $RCSfile: PrintFile.cxx,v $ Language: C++ - Date: $Date: 2006/03/29 16:15:01 $ - Version: $Revision: 1.80 $ + Date: $Date: 2010/09/01 14:41:48 $ + Version: $Revision: 1.94 $ Copyright (c) CREATIS (Centre de Recherche et d'Applications en Traitement de l'Image). All rights reserved. See Doc/License.txt or @@ -30,20 +30,20 @@ #include "gdcmOrientation.h" #include -// TODO : code factorization, for 'single file' an 'whole directory' processing +/// \todo : code factorization, for 'single file' an 'whole directory' processing -void ShowLutData(gdcm::File *f); +void ShowLutData(GDCM_NAME_SPACE::File *f); // Nothing is written yet to get LUT Data user friendly // The following is to be moved into a PixelReadConvert method // Let here, waiting for a clever idea on the way to do it. -void ShowLutData(gdcm::File *f) +void ShowLutData(GDCM_NAME_SPACE::File *f) { - gdcm::SeqEntry *modLutSeq = f->GetSeqEntry(0x0028,0x3000); + GDCM_NAME_SPACE::SeqEntry *modLutSeq = f->GetSeqEntry(0x0028,0x3000); if ( modLutSeq !=0 ) { - gdcm::SQItem *sqi= modLutSeq->GetFirstSQItem(); + GDCM_NAME_SPACE::SQItem *sqi= modLutSeq->GetFirstSQItem(); if ( sqi != 0 ) { std::string lutDescriptor = sqi->GetEntryString(0x0028,0x3002); @@ -70,7 +70,7 @@ void ShowLutData(gdcm::File *f) std::cout << "Wrong LUT descriptor" << std::endl; } //LUT Data (CTX dependent) - gdcm::DataEntry *b = sqi->GetDataEntry(0x0028,0x3006); + GDCM_NAME_SPACE::DataEntry *b = sqi->GetDataEntry(0x0028,0x3006); if ( b != 0 ) { int BitsAllocated = f->GetBitsAllocated(); @@ -125,11 +125,14 @@ int main(int argc, char *argv[]) " \n PrintFile : \n ", " Display the header of a ACR-NEMA/PAPYRUS/DICOM File ", " usage: PrintFile {filein=inputFileName|dirin=inputDirectoryName}[level=n]", - " [forceload=listOfElementsToForceLoad] ", + " [forceload=listOfElementsToForceLoad] [rec] [noex] ", " [4DLoc= ][dict= privateDirectory] ", - " [ { [noshadowseq] | [noshadow][noseq] } ] ", + " [ { [noshadowseq] | [noshadow][noseq] } ] [load] ", " [debug] [warning] ", " level = 0,1,2 : depending on the amount of details user wants to see", + " rec : user wants to parse recursively the directory ", + " load : user wants to load the pixels, as well (to see warning info) ", + " noex : user doesn't want extra 'user friendly' info ", " 4DLoc: group-elem(in hexa, no space) of the DataEntry holdind 4thDim", " listOfElementsToForceLoad : group-elem,g2-e2,... (in hexa, no space)", " of Elements to load whatever their length ", @@ -143,7 +146,7 @@ int main(int argc, char *argv[]) FINISH_USAGE // Initialize Arguments Manager - gdcm::ArgMgr *am= new gdcm::ArgMgr(argc, argv); + GDCM_NAME_SPACE::ArgMgr *am= new GDCM_NAME_SPACE::ArgMgr(argc, argv); if (argc == 1 || am->ArgMgrDefined("usage") ) { @@ -164,23 +167,26 @@ int main(int argc, char *argv[]) am->ArgMgrUsage(usage); // Display 'usage' delete am; return 1; - } - + } + + bool noex = ( 0 != am->ArgMgrDefined("noex") ); + bool rec = ( 0 != am->ArgMgrDefined("rec") ); + if (am->ArgMgrDefined("debug")) - gdcm::Debug::DebugOn(); + GDCM_NAME_SPACE::Debug::DebugOn(); if (am->ArgMgrDefined("warning")) - gdcm::Debug::WarningOn(); + GDCM_NAME_SPACE::Debug::WarningOn(); - int loadMode = gdcm::LD_ALL; + int loadMode = GDCM_NAME_SPACE::LD_ALL; if ( am->ArgMgrDefined("noshadowseq") ) - loadMode |= gdcm::LD_NOSHADOWSEQ; + loadMode |= GDCM_NAME_SPACE::LD_NOSHADOWSEQ; else { if ( am->ArgMgrDefined("noshadow") ) - loadMode |= gdcm::LD_NOSHADOW; + loadMode |= GDCM_NAME_SPACE::LD_NOSHADOW; if ( am->ArgMgrDefined("noseq") ) - loadMode |= gdcm::LD_NOSEQ; + loadMode |= GDCM_NAME_SPACE::LD_NOSEQ; } int level = am->ArgMgrGetInt("level", 1); @@ -188,8 +194,8 @@ int main(int argc, char *argv[]) int forceLoadNb; uint16_t *elemsToForceLoad = am->ArgMgrGetXInt16Enum("forceload", &forceLoadNb); - - int nbP; + + int nbP =0; uint16_t *FourthDimLoc; if ( am->ArgMgrDefined("4DLoc") ) { @@ -203,6 +209,8 @@ int main(int argc, char *argv[]) } } + bool load = ( 0 != am->ArgMgrDefined("load") ); + bool showlut = ( 0 != am->ArgMgrDefined("SHOWLUT") ); bool ddict = am->ArgMgrDefined("dict") ? true : false; @@ -225,60 +233,73 @@ int main(int argc, char *argv[]) // ----------- End Arguments Manager --------- - + if (ddict) { - gdcm::Global::GetDicts()->GetDefaultPubDict()->AddDict(dict); + GDCM_NAME_SPACE::Global::GetDicts()->GetDefaultPubDict()->AddDict(dict); } if ( fileName != 0 ) // ====== Deal with a single file ====== - { - gdcm::File *f = gdcm::File::New(); + { + GDCM_NAME_SPACE::File *f = GDCM_NAME_SPACE::File::New(); f->SetLoadMode(loadMode); f->SetFileName( fileName ); + f->SetMaxSizeLoadEntry(0xffff); for (int ri=0; riAddForceLoadElement((uint32_t)elemsToForceLoad[2*ri], - (uint32_t)elemsToForceLoad[2*ri+1] ); + (uint32_t)elemsToForceLoad[2*ri+1] ); } + // TODO : find why such a polution -// To avoid polluting the output with messages +// To avoid polluting the output with messages // 'Last system error was : No such file or directory' errno = 0; - bool res = f->Load(); - // gdcm::File::IsReadable() is no usable here, because we deal with - // any kind of gdcm-Parsable *document* - // not only gdcm::File (as opposed to gdcm::DicomDir) + bool res = false; + try + { + res = f->Load(); + } + catch(std::exception &ex) + { + std::cerr << "sorry an exception was thrown: " << ex.what() << std::endl; + } + // GDCM_NAME_SPACE::File::IsReadable() is no usable here, because we deal with + // any kind of gdcm-Parsable *document* + // not only GDCM_NAME_SPACE::File (as opposed to GDCM_NAME_SPACE::DicomDir) if ( !res ) { std::cout << "Cannot process file [" << fileName << "]" << std::endl; - std::cout << "Either it doesn't exist, or it's read protected " + 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::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(); return 0; } + if (nbP == 1) f->SetFourthDimensionLocation(FourthDimLoc[0],FourthDimLoc[1]); - gdcm::FileHelper *fh = gdcm::FileHelper::New(f); + + GDCM_NAME_SPACE::FileHelper *fh = GDCM_NAME_SPACE::FileHelper::New(f); fh->SetPrintLevel( level ); fh->Print(); - std::cout << "\n\n" << std::endl; + std::cout << "\n\n" << std::endl; std::cout <GetImageDataSize() << std::endl; std::cout <<" dataSizeRaw " << fh->GetImageDataRawSize() << std::endl; - +if (!noex) +{ int nX,nY,nZ,nT,sPP,planarConfig; std::string pixelType; nX=f->GetXSize(); @@ -327,60 +348,92 @@ errno = 0; std::cout << " SwapCode= " << f->GetSwapCode() << std::endl; std::cout << " ------" << std::endl; - //std::cout << "\n\n" << std::endl; - //std::cout << "X spacing " << f->GetXSpacing() << std::endl; - //std::cout << "Y spacing " << f->GetYSpacing() << std::endl; - //std::cout << "Z spacing " << f->GetZSpacing() << std::endl; + std::cout << "\n\n" << std::endl; + std::cout << "X spacing " << f->GetXSpacing() << std::endl; + std::cout << "Y spacing " << f->GetYSpacing() << std::endl; + std::cout << "Z spacing " << f->GetZSpacing() << std::endl; + //------------------------------ - // Lets's get and print some usefull fields about 'Orientation' + + // Let's get and print some usefull fields about 'Orientation' // ------------------------------------------------------------ std::string strPatientPosition = f->GetEntryString(0x0018,0x5100); - if ( strPatientPosition != gdcm::GDCM_UNFOUND + if ( strPatientPosition != GDCM_NAME_SPACE::GDCM_UNFOUND && strPatientPosition != "" ) std::cout << "PatientPosition (0x0010,0x5100)= [" << strPatientPosition << "]" << std::endl; std::string strViewPosition = f->GetEntryString(0x0018,0x5101); - if ( strViewPosition != gdcm::GDCM_UNFOUND + if ( strViewPosition != GDCM_NAME_SPACE::GDCM_UNFOUND && strViewPosition != "" ) - std::cout << "strViewPosition (0x0010,0x5101)= [" + std::cout << "View Position (0x0018,0x5101)= [" << strViewPosition << "]" << std::endl; std::string strPatientOrientation = f->GetEntryString(0x0020,0x0020); - if ( strPatientOrientation != gdcm::GDCM_UNFOUND + if ( strPatientOrientation != GDCM_NAME_SPACE::GDCM_UNFOUND && strPatientOrientation != "") std::cout << "PatientOrientation (0x0020,0x0020)= [" << strPatientOrientation << "]" << std::endl; std::string strImageOrientationPatient = f->GetEntryString(0x0020,0x0037); - if ( strImageOrientationPatient != gdcm::GDCM_UNFOUND + if ( strImageOrientationPatient != GDCM_NAME_SPACE::GDCM_UNFOUND && strImageOrientationPatient != "" ) std::cout << "ImageOrientationPatient (0x0020,0x0037)= [" << strImageOrientationPatient << "]" << std::endl; std::string strImageOrientationRET = f->GetEntryString(0x0020,0x0035); - if ( strImageOrientationRET != gdcm::GDCM_UNFOUND + if ( strImageOrientationRET != GDCM_NAME_SPACE::GDCM_UNFOUND && strImageOrientationRET != "" ) std::cout << "ImageOrientationRET (0x0020,0x0035)= [" << strImageOrientationRET << "]" << std::endl; + std::string strImagePositionPatient = + f->GetEntryString(0x0020,0x0032); + if ( strImagePositionPatient != GDCM_NAME_SPACE::GDCM_UNFOUND + && strImagePositionPatient != "" ) + std::cout << "ImagePositionPatient (0x0020,0x0032)= [" + << strImagePositionPatient << "]" << std::endl; + + std::string strImagePositionPatientRET = + f->GetEntryString(0x0020,0x0030); + if ( strImagePositionPatientRET != GDCM_NAME_SPACE::GDCM_UNFOUND + && strImagePositionPatientRET != "" ) + std::cout << "ImagePositionPatientRET (0x0020,0x0030)= [" + << strImagePositionPatientRET << "]" << std::endl; + + float iop[6]; + //bool riop = + f->GetImageOrientationPatient(iop); + float ipp[3]; + //bool ripp = + f->GetImagePositionPatient(ipp); + + std::cout << "Image Position (0x0020,0x0032|0x0030) : " + << ipp[0] << " , " << ipp[1] << " , "<< ipp[2] + << std::endl; + std::cout << "Image Orientation (0x0020,0x0037|0x0035) : " + << iop[0] << " , " << iop[1] << " , "<< iop[2] << " , " + << iop[3] << " , " << iop[4] << " , "<< iop[5] + << std::endl; + + // Let's compute 'user friendly' results about 'Orientation' // --------------------------------------------------------- - gdcm::Orientation *o = gdcm::Orientation::New(); + GDCM_NAME_SPACE::Orientation *o = GDCM_NAME_SPACE::Orientation::New(); - if ( strImageOrientationPatient != gdcm::GDCM_UNFOUND || - strImageOrientationRET != gdcm::GDCM_UNFOUND ) + if ( strImageOrientationPatient != GDCM_NAME_SPACE::GDCM_UNFOUND || + strImageOrientationRET != GDCM_NAME_SPACE::GDCM_UNFOUND ) { - gdcm::OrientationType orient = o->GetOrientationType( f ); + GDCM_NAME_SPACE::OrientationType orient = o->GetOrientationType( f ); std::cout << "TypeOrientation = " << orient << " (-> " << o->GetOrientationTypeString(orient) << " )" << std::endl; @@ -389,8 +442,82 @@ errno = 0; std::string ori = o->GetOrientation ( f ); if (ori != "\\" ) std::cout << "Orientation [" << ori << "]" << std::endl; - - o->Delete(); + o->Delete(); + + +/* +std::vector valueVector; +GDCM_NAME_SPACE::DataEntry *e_0018_5212 = f->GetDataEntry(0x0018, 0x5212); +bool resJP = e_0018_5212->GetDSValue(valueVector); +if (resJP) { + double test; + for ( int i=0; i < 3; i++ ) { + test = valueVector[i]; + std::cout << " test " << test << std::endl; + } +} +//e_0018_5212->Delete(); +*/ + + +/* ----------------------------- + +// Try : +std::cout << std::endl << std::endl << "===========Try Get Numerical =======" + << std::endl; +GDCM_NAME_SPACE::DataEntry *e; +bool res; +std::vector vd; + +// Transfert Syntax +e=f->GetDataEntry(0x0002,0x0010); +if (e){ + res=e->GetNumerical(vd); + if (!res){ + std::cout << "0x0002,0x0010 not numerical, size =" << vd.size() << std::endl; + } +} +// Columns +e=f->GetDataEntry(0x0028,0x0011); +if (e){ + res=e->GetNumerical(vd); + if (!res){ + std::cout << "0x0028,0x0011 not numerical, size =" << vd.size() << std::endl; + } else { + std::cout << "0x0028,0x0011 numerical, size =" << vd.size() << std::endl; + std::cout << vd[0]<< std::endl; + } +} +// Im Orient (Pat) +e=f->GetDataEntry(0x0020,0x0032); +if (e){ + res=e->GetNumerical(vd); + if (!res){ + std::cout << "0x0020,0x0032 not numerical, size =" << vd.size() << std::endl; + } else { + std::cout << "0x0020,0x0032 numerical, size =" << vd.size() << std::endl; + for(int l=0; lGetDataEntry(0x0028,0x3006); + GDCM_NAME_SPACE::DataEntry *b = sqi->GetDataEntry(0x0028,0x3006); if ( b != 0 ) { if ( b->GetLength() != 0 ) @@ -440,6 +567,7 @@ errno = 0; else std::cout << "No LUT Data (0x0028,0x3000) found " << std::endl; } + /* else { if ( fh->GetLutItemSize() == 8 ) @@ -460,6 +588,7 @@ errno = 0; << (int)(lutrgba16[i*4+2]) << std::endl; } } + */ } else if (showlut) { @@ -467,7 +596,7 @@ errno = 0; ShowLutData(f); } - // Parsability of the gdcm::Document already checked, after Load() ! + // Parsability of the GDCM_NAME_SPACE::Document already checked, after Load() ! if ( f->IsReadable() ) { @@ -493,21 +622,28 @@ errno = 0; f->Delete(); fh->Delete(); } - else // ====== Deal with a Directory ====== - { + // =========================================================================== + else // =============================== Deal with a Directory ===================== + { // =========================================================================== std::cout << "dirName [" << dirName << "]" << std::endl; - gdcm::DirList dirList(dirName,1); // gets recursively the file list - gdcm::DirListType fileList = dirList.GetFilenames(); - gdcm::File *f; + + 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; - for( gdcm::DirListType::iterator it = fileList.begin(); + 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 ) { std::cout << std::endl<<" Start processing :[" << it->c_str() << "]" << std::endl; - f = gdcm::File::New(); + f = GDCM_NAME_SPACE::File::New(); f->SetLoadMode(loadMode); f->SetFileName( it->c_str() ); @@ -535,46 +671,47 @@ errno = 0; continue; } - gdcm::FileHelper *fh = gdcm::FileHelper::New(f); + GDCM_NAME_SPACE::FileHelper *fh = GDCM_NAME_SPACE::FileHelper::New(f); fh->SetPrintLevel( level ); fh->Print(); //------------------------------ - +if (!noex) +{ // Lets's get and print some usefull fields about 'Orientation' // ------------------------------------------------------------ std::string strPatientPosition = f->GetEntryString(0x0018,0x5100); - if ( strPatientPosition != gdcm::GDCM_UNFOUND + if ( strPatientPosition != GDCM_NAME_SPACE::GDCM_UNFOUND && strPatientPosition != "" ) std::cout << "PatientPosition (0x0010,0x5100)= [" << strPatientPosition << "]" << std::endl; std::string strViewPosition = f->GetEntryString(0x0018,0x5101); - if ( strViewPosition != gdcm::GDCM_UNFOUND + if ( strViewPosition != GDCM_NAME_SPACE::GDCM_UNFOUND && strViewPosition != "" ) std::cout << "strViewPosition (0x0010,0x5101)= [" << strViewPosition << "]" << std::endl; std::string strPatientOrientation = f->GetEntryString(0x0020,0x0020); - if ( strPatientOrientation != gdcm::GDCM_UNFOUND + if ( strPatientOrientation != GDCM_NAME_SPACE::GDCM_UNFOUND && strPatientOrientation != "") std::cout << "PatientOrientation (0x0020,0x0020)= [" << strPatientOrientation << "]" << std::endl; std::string strImageOrientationPatient = f->GetEntryString(0x0020,0x0037); - if ( strImageOrientationPatient != gdcm::GDCM_UNFOUND + if ( strImageOrientationPatient != GDCM_NAME_SPACE::GDCM_UNFOUND && strImageOrientationPatient != "" ) std::cout << "ImageOrientationPatient (0x0020,0x0037)= [" << strImageOrientationPatient << "]" << std::endl; std::string strImageOrientationRET = f->GetEntryString(0x0020,0x0035); - if ( strImageOrientationRET != gdcm::GDCM_UNFOUND + if ( strImageOrientationRET != GDCM_NAME_SPACE::GDCM_UNFOUND && strImageOrientationRET != "" ) { std::cout << "ImageOrientationRET (0x0020,0x0035)= [" @@ -584,14 +721,14 @@ errno = 0; // Let's compute 'user friendly' results about 'Orientation' // --------------------------------------------------------- - gdcm::Orientation *o = gdcm::Orientation::New(); + GDCM_NAME_SPACE::Orientation *o = GDCM_NAME_SPACE::Orientation::New(); - if ( strImageOrientationPatient != gdcm::GDCM_UNFOUND || - strImageOrientationRET != gdcm::GDCM_UNFOUND ) + if ( strImageOrientationPatient != GDCM_NAME_SPACE::GDCM_UNFOUND || + strImageOrientationRET != GDCM_NAME_SPACE::GDCM_UNFOUND ) { - gdcm::OrientationType orient = o->GetOrientationType( f ); + GDCM_NAME_SPACE::OrientationType orient = o->GetOrientationType( f ); std::cout << "TypeOrientation = " << orient << " (-> " << o->GetOrientationTypeString(orient) << " )" << std::endl; @@ -600,15 +737,26 @@ errno = 0; std::string ori = o->GetOrientation ( f ); if (ori != "\\" ) std::cout << "Orientation [" << ori << "]" << std::endl; - o->Delete(); - + o->Delete(); +} //------------------------------- if (f->IsReadable()) + { + if (load) // just to see warning messages at load time ! + { + uint8_t *pixels = fh->GetImageData(); (void)pixels; + uint32_t lgth = fh->GetImageDataSize(); (void)lgth; + } + std::cout <c_str()<<" is Readable"<c_str()<<" is NOT Readable"<Delete(); fh->Delete(); }