X-Git-Url: https://git.creatis.insa-lyon.fr/pubgit/?a=blobdiff_plain;f=src%2FgdcmHeader.cxx;h=9a3e9cf531243ac674e2e7b0b23a71a048e2c2ba;hb=00b6e0ddcbdbd41252e03732783f65efe5f52526;hp=b8a6bbc40983e1d336629e1e40d4fac76a5bd421;hpb=5fbbb82939b73f5de7695e5c388a33426a3b36f4;p=gdcm.git diff --git a/src/gdcmHeader.cxx b/src/gdcmHeader.cxx index b8a6bbc4..9a3e9cf5 100644 --- a/src/gdcmHeader.cxx +++ b/src/gdcmHeader.cxx @@ -1,1580 +1,133 @@ +/*========================================================================= + + Program: gdcm + Module: $RCSfile: gdcmHeader.cxx,v $ + Language: C++ + Date: $Date: 2004/06/23 09:30:22 $ + Version: $Revision: 1.169 $ + + 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.htm 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. + +=========================================================================*/ -// $Header: /cvs/public/gdcm/src/Attic/gdcmHeader.cxx,v 1.77 2003/07/03 11:29:34 jpr Exp $ - -#include -#include -// For nthos: -#ifdef _MSC_VER -#include -#else -#include -#endif -#include // for isalpha -#include -#include "gdcmUtil.h" -#include "gdcmHeader.h" -using namespace std; - - -// TODO : remove DEBUG -#define DEBUG 0 - -// Refer to gdcmHeader::CheckSwap() -#define HEADER_LENGTH_TO_READ 256 -// Refer to gdcmHeader::SetMaxSizeLoadElementValue() -#define _MaxSizeLoadElementValue_ 1024 - -/** - * \ingroup gdcmHeader - * \brief - */ -void gdcmHeader::Initialise(void) { - dicom_vr = gdcmGlobal::GetVR(); - dicom_ts = gdcmGlobal::GetTS(); - Dicts = gdcmGlobal::GetDicts(); - RefPubDict = Dicts->GetDefaultPubDict(); - RefShaDict = (gdcmDict*)0; -} - -/** - * \ingroup gdcmHeader - * \brief - * @param InFilename - * @param exception_on_error - */ -gdcmHeader::gdcmHeader(const char *InFilename, bool exception_on_error) { - SetMaxSizeLoadElementValue(_MaxSizeLoadElementValue_); - filename = InFilename; - Initialise(); - if ( !OpenFile(exception_on_error)) - return; - ParseHeader(); - LoadElements(); - CloseFile(); -} - -/** - * \ingroup gdcmHeader - * \brief - * @param exception_on_error - */ -gdcmHeader::gdcmHeader(bool exception_on_error) { - SetMaxSizeLoadElementValue(_MaxSizeLoadElementValue_); - Initialise(); -} - -/** - * \ingroup gdcmHeader - * \brief - * @param exception_on_error - * @return - */ - bool gdcmHeader::OpenFile(bool exception_on_error) - throw(gdcmFileError) { - fp=fopen(filename.c_str(),"rb"); - if(exception_on_error) { - if(!fp) - throw gdcmFileError("gdcmHeader::gdcmHeader(const char *, bool)"); - } - if ( fp ) - return true; - dbg.Verbose(0, "gdcmHeader::gdcmHeader cannot open file", filename.c_str()); - return false; -} - -/** - * \ingroup gdcmHeader - * \brief - * @return - */ -bool gdcmHeader::CloseFile(void) { - int closed = fclose(fp); - fp = (FILE *)0; - if (! closed) - return false; - return true; -} - -/** - * \ingroup gdcmHeader - * \brief Canonical destructor. - */ -gdcmHeader::~gdcmHeader (void) { - dicom_vr = (gdcmVR*)0; - Dicts = (gdcmDictSet*)0; - RefPubDict = (gdcmDict*)0; - RefShaDict = (gdcmDict*)0; - return; -} - -// Fourth semantics: -// CMD Command -// META Meta Information -// DIR Directory -// ID -// PAT Patient -// ACQ Acquisition -// REL Related -// IMG Image -// SDY Study -// VIS Visit -// WAV Waveform -// PRC -// DEV Device -// NMI Nuclear Medicine -// MED -// BFS Basic Film Session -// BFB Basic Film Box -// BIB Basic Image Box -// BAB -// IOB -// PJ -// PRINTER -// RT Radio Therapy -// DVH -// SSET -// RES Results -// CRV Curve -// OLY Overlays -// PXL Pixels -// - -/** - * \ingroup gdcmHeader - * \brief Discover what the swap code is (among little endian, big endian, - * bad little endian, bad big endian). - * - */ -void gdcmHeader::CheckSwap() -{ - // The only guaranted way of finding the swap code is to find a - // group tag since we know it's length has to be of four bytes i.e. - // 0x00000004. Finding the swap code in then straigthforward. Trouble - // occurs when we can't find such group... - guint32 s; - guint32 x=4; // x : pour ntohs - bool net2host; // true when HostByteOrder is the same as NetworkByteOrder - - int lgrLue; - char * entCur; - char deb[HEADER_LENGTH_TO_READ]; - - // First, compare HostByteOrder and NetworkByteOrder in order to - // determine if we shall need to swap bytes (i.e. the Endian type). - if (x==ntohs(x)) - net2host = true; - else - net2host = false; - - // The easiest case is the one of a DICOM header, since it possesses a - // file preamble where it suffice to look for the string "DICM". - lgrLue = fread(deb, 1, HEADER_LENGTH_TO_READ, fp); - - entCur = deb + 128; - if(memcmp(entCur, "DICM", (size_t)4) == 0) { - dbg.Verbose(1, "gdcmHeader::CheckSwap:", "looks like DICOM Version3"); - // Next, determine the value representation (VR). Let's skip to the - // first element (0002, 0000) and check there if we find "UL" - // - or "OB" if the 1st one is (0002,0001) -, - // in which case we (almost) know it is explicit VR. - // WARNING: if it happens to be implicit VR then what we will read - // is the length of the group. If this ascii representation of this - // length happens to be "UL" then we shall believe it is explicit VR. - // FIXME: in order to fix the above warning, we could read the next - // element value (or a couple of elements values) in order to make - // sure we are not commiting a big mistake. - // We need to skip : - // * the 128 bytes of File Preamble (often padded with zeroes), - // * the 4 bytes of "DICM" string, - // * the 4 bytes of the first tag (0002, 0000),or (0002, 0001) - // i.e. a total of 136 bytes. - entCur = deb + 136; - // FIXME - // Use gdcmHeader::dicom_vr to test all the possibilities - // instead of just checking for UL, OB and UI !? - if( (memcmp(entCur, "UL", (size_t)2) == 0) || - (memcmp(entCur, "OB", (size_t)2) == 0) || - (memcmp(entCur, "UI", (size_t)2) == 0) ) - { - filetype = ExplicitVR; - dbg.Verbose(1, "gdcmHeader::CheckSwap:", - "explicit Value Representation"); - } else { - filetype = ImplicitVR; - dbg.Verbose(1, "gdcmHeader::CheckSwap:", - "not an explicit Value Representation"); - } - if (net2host) { - sw = 4321; - dbg.Verbose(1, "gdcmHeader::CheckSwap:", - "HostByteOrder != NetworkByteOrder"); - } else { - sw = 0; - dbg.Verbose(1, "gdcmHeader::CheckSwap:", - "HostByteOrder = NetworkByteOrder"); - } - - // Position the file position indicator at first tag (i.e. - // after the file preamble and the "DICM" string). - rewind(fp); - fseek (fp, 132L, SEEK_SET); - return; - } // End of DicomV3 - - // Alas, this is not a DicomV3 file and whatever happens there is no file - // preamble. We can reset the file position indicator to where the data - // is (i.e. the beginning of the file). - dbg.Verbose(1, "gdcmHeader::CheckSwap:", "not a DICOM Version3 file"); - rewind(fp); - - // Our next best chance would be to be considering a 'clean' ACR/NEMA file. - // By clean we mean that the length of the first tag is written down. - // If this is the case and since the length of the first group HAS to be - // four (bytes), then determining the proper swap code is straightforward. - - entCur = deb + 4; - // We assume the array of char we are considering contains the binary - // representation of a 32 bits integer. Hence the following dirty - // trick : - s = *((guint32 *)(entCur)); - - switch (s) { - case 0x00040000 : - sw = 3412; - filetype = ACR; - return; - case 0x04000000 : - sw = 4321; - filetype = ACR; - return; - case 0x00000400 : - sw = 2143; - filetype = ACR; - return; - case 0x00000004 : - sw = 0; - filetype = ACR; - return; - default : - dbg.Verbose(0, "gdcmHeader::CheckSwap:", - "ACR/NEMA unfound swap info (time to raise bets)"); - } - - // We are out of luck. It is not a DicomV3 nor a 'clean' ACR/NEMA file. - // It is time for despaired wild guesses. So, let's assume this file - // happens to be 'dirty' ACR/NEMA, i.e. the length of the group is - // not present. Then the only info we have is the net2host one. - filetype = Unknown; - if (! net2host ) - sw = 0; - else - sw = 4321; - return; -} - -/** - * \ingroup gdcmHeader - * \brief - */ -void gdcmHeader::SwitchSwapToBigEndian(void) { - dbg.Verbose(1, "gdcmHeader::SwitchSwapToBigEndian", - "Switching to BigEndian mode."); - if ( sw == 0 ) { - sw = 4321; - return; - } - if ( sw == 4321 ) { - sw = 0; - return; - } - if ( sw == 3412 ) { - sw = 2143; - return; - } - if ( sw == 2143 ) - sw = 3412; -} - -/** - * \ingroup gdcmHeader - * \brief Find the value representation of the current tag. - * @param ElVal - */ -void gdcmHeader::FindVR( gdcmElValue *ElVal) { - if (filetype != ExplicitVR) - return; - - char VR[3]; - string vr; - int lgrLue; - char msg[100]; // for sprintf. Sorry - - long PositionOnEntry = ftell(fp); - // Warning: we believe this is explicit VR (Value Representation) because - // we used a heuristic that found "UL" in the first tag. Alas this - // doesn't guarantee that all the tags will be in explicit VR. In some - // cases (see e-film filtered files) one finds implicit VR tags mixed - // within an explicit VR file. Hence we make sure the present tag - // is in explicit VR and try to fix things if it happens not to be - // the case. - bool RealExplicit = true; - - lgrLue=fread (&VR, (size_t)2,(size_t)1, fp); - VR[2]=0; - vr = string(VR); - - // Assume we are reading a falsely explicit VR file i.e. we reached - // a tag where we expect reading a VR but are in fact we read the - // first to bytes of the length. Then we will interogate (through find) - // the dicom_vr dictionary with oddities like "\004\0" which crashes - // both GCC and VC++ implementations of the STL map. Hence when the - // expected VR read happens to be non-ascii characters we consider - // we hit falsely explicit VR tag. - - if ( (!isalpha(VR[0])) && (!isalpha(VR[1])) ) - RealExplicit = false; - - // CLEANME searching the dicom_vr at each occurence is expensive. - // PostPone this test in an optional integrity check at the end - // of parsing or only in debug mode. - if ( RealExplicit && !dicom_vr->Count(vr) ) - RealExplicit= false; - - if ( RealExplicit ) { - if ( ElVal->IsVrUnknown() ) { - // When not a dictionary entry, we can safely overwrite the vr. - ElVal->SetVR(vr); - return; - } - if ( ElVal->GetVR() == vr ) { - // The vr we just read and the dictionary agree. Nothing to do. - return; - } - // The vr present in the file and the dictionary disagree. We assume - // the file writer knew best and use the vr of the file. Since it would - // be unwise to overwrite the vr of a dictionary (since it would - // compromise it's next user), we need to clone the actual DictEntry - // and change the vr for the read one. - gdcmDictEntry* NewTag = new gdcmDictEntry(ElVal->GetGroup(), - ElVal->GetElement(), - vr, - "FIXME", - ElVal->GetName()); - ElVal->SetDictEntry(NewTag); - return; - } - - // We thought this was explicit VR, but we end up with an - // implicit VR tag. Let's backtrack. - - sprintf(msg,"Falsely explicit vr file (%04x,%04x)\n", ElVal->GetGroup(),ElVal->GetElement()); - dbg.Verbose(1, "gdcmHeader::FindVR: ",msg); - - fseek(fp, PositionOnEntry, SEEK_SET); - // When this element is known in the dictionary we shall use, e.g. for - // the semantics (see the usage of IsAnInteger), the vr proposed by the - // dictionary entry. Still we have to flag the element as implicit since - // we know now our assumption on expliciteness is not furfilled. - // avoid . - if ( ElVal->IsVrUnknown() ) - ElVal->SetVR("Implicit"); - ElVal->SetImplicitVr(); -} - -/** - * \ingroup gdcmHeader - * \brief Determines if the Transfer Syntax was already encountered - * and if it corresponds to a ImplicitVRLittleEndian one. - * - * @return True when ImplicitVRLittleEndian found. False in all other cases. - */ -bool gdcmHeader::IsImplicitVRLittleEndianTransferSyntax(void) { - gdcmElValue* Element = PubElValSet.GetElementByNumber(0x0002, 0x0010); - if ( !Element ) - return false; - LoadElementValueSafe(Element); - string Transfer = Element->GetValue(); - if ( Transfer == "1.2.840.10008.1.2" ) - return true; - return false; -} - -/** - * \ingroup gdcmHeader - * \brief Determines if the Transfer Syntax was already encountered - * and if it corresponds to a ExplicitVRLittleEndian one. - * - * @return True when ExplicitVRLittleEndian found. False in all other cases. - */ -bool gdcmHeader::IsExplicitVRLittleEndianTransferSyntax(void) { - gdcmElValue* Element = PubElValSet.GetElementByNumber(0x0002, 0x0010); - if ( !Element ) - return false; - LoadElementValueSafe(Element); - string Transfer = Element->GetValue(); - if ( Transfer == "1.2.840.10008.1.2.1" ) - return true; - return false; -} - -/** - * \ingroup gdcmHeader - * \brief Determines if the Transfer Syntax was already encountered - * and if it corresponds to a DeflatedExplicitVRLittleEndian one. - * - * @return True when DeflatedExplicitVRLittleEndian found. False in all other cases. - */ -bool gdcmHeader::IsDeflatedExplicitVRLittleEndianTransferSyntax(void) { - gdcmElValue* Element = PubElValSet.GetElementByNumber(0x0002, 0x0010); - if ( !Element ) - return false; - LoadElementValueSafe(Element); - string Transfer = Element->GetValue(); - if ( Transfer == "1.2.840.10008.1.2.1.99" ) - return true; - return false; -} - -/** - * \ingroup gdcmHeader - * \brief Determines if the Transfer Syntax was already encountered - * and if it corresponds to a Explicit VR Big Endian one. - * - * @return True when big endian found. False in all other cases. - */ -bool gdcmHeader::IsExplicitVRBigEndianTransferSyntax(void) { - gdcmElValue* Element = PubElValSet.GetElementByNumber(0x0002, 0x0010); - if ( !Element ) - return false; - LoadElementValueSafe(Element); - string Transfer = Element->GetValue(); - if ( Transfer == "1.2.840.10008.1.2.2" ) //1.2.2 ??? A verifier ! - return true; - return false; -} - -/** - * \ingroup gdcmHeader - * \brief Determines if the Transfer Syntax was already encountered - * and if it corresponds to a JPEGBaseLineProcess1 one. - * - * @return True when JPEGBaseLineProcess1found. False in all other cases. - */ -bool gdcmHeader::IsJPEGBaseLineProcess1TransferSyntax(void) { - gdcmElValue* Element = PubElValSet.GetElementByNumber(0x0002, 0x0010); - if ( !Element ) - return false; - LoadElementValueSafe(Element); - string Transfer = Element->GetValue(); - if ( Transfer == "1.2.840.10008.1.2.4.50" ) - return true; - return false; -} - -/** - * \ingroup gdcmHeader - * \brief - * - * @return - */ -bool gdcmHeader::IsJPEGLossless(void) { - gdcmElValue* Element = PubElValSet.GetElementByNumber(0x0002, 0x0010); - // faire qq chose d'intelligent a la place de ça - if ( !Element ) - return false; - LoadElementValueSafe(Element); - const char * Transfert = Element->GetValue().c_str(); - if ( memcmp(Transfert+strlen(Transfert)-2 ,"70",2)==0) return true; - if ( memcmp(Transfert+strlen(Transfert)-2 ,"55",2)==0) return true; - return false; -} - - -/** - * \ingroup gdcmHeader - * \brief Determines if the Transfer Syntax was already encountered - * and if it corresponds to a JPEGExtendedProcess2-4 one. - * - * @return True when JPEGExtendedProcess2-4 found. False in all other cases. - */ -bool gdcmHeader::IsJPEGExtendedProcess2_4TransferSyntax(void) { - gdcmElValue* Element = PubElValSet.GetElementByNumber(0x0002, 0x0010); - if ( !Element ) - return false; - LoadElementValueSafe(Element); - string Transfer = Element->GetValue(); - if ( Transfer == "1.2.840.10008.1.2.4.51" ) - return true; - return false; -} - -/** - * \ingroup gdcmHeader - * \brief Determines if the Transfer Syntax was already encountered - * and if it corresponds to a JPEGExtendeProcess3-5 one. - * - * @return True when JPEGExtendedProcess3-5 found. False in all other cases. - */ -bool gdcmHeader::IsJPEGExtendedProcess3_5TransferSyntax(void) { - gdcmElValue* Element = PubElValSet.GetElementByNumber(0x0002, 0x0010); - if ( !Element ) - return false; - LoadElementValueSafe(Element); - string Transfer = Element->GetValue(); - if ( Transfer == "1.2.840.10008.1.2.4.52" ) - return true; - return false; -} - -/** - * \ingroup gdcmHeader - * \brief Determines if the Transfer Syntax was already encountered - * and if it corresponds to a JPEGSpectralSelectionProcess6-8 one. - * - * @return True when JPEGSpectralSelectionProcess6-8 found. False in all - * other cases. - */ -bool gdcmHeader::IsJPEGSpectralSelectionProcess6_8TransferSyntax(void) { - gdcmElValue* Element = PubElValSet.GetElementByNumber(0x0002, 0x0010); - if ( !Element ) - return false; - LoadElementValueSafe(Element); - string Transfer = Element->GetValue(); - if ( Transfer == "1.2.840.10008.1.2.4.53" ) - return true; - return false; -} - -/** - * \ingroup gdcmHeader - * \brief Predicate for dicom version 3 file. - * @return True when the file is a dicom version 3. - */ -bool gdcmHeader::IsDicomV3(void) { - if ( (filetype == ExplicitVR) - || (filetype == ImplicitVR) ) - return true; - return false; -} - -/** - * \ingroup gdcmHeader - * \brief When the length of an element value is obviously wrong (because - * the parser went Jabberwocky) one can hope improving things by - * applying this heuristic. - */ -void gdcmHeader::FixFoundLength(gdcmElValue * ElVal, guint32 FoundLength) { - if ( FoundLength == 0xffffffff) - FoundLength = 0; - ElVal->SetLength(FoundLength); -} - -/** - * \ingroup gdcmHeader - * \brief - * - * @return - */ - guint32 gdcmHeader::FindLengthOB(void) { - // See PS 3.5-2001, section A.4 p. 49 on encapsulation of encoded pixel data. - guint16 g; - guint16 n; - long PositionOnEntry = ftell(fp); - bool FoundSequenceDelimiter = false; - guint32 TotalLength = 0; - guint32 ItemLength; - - while ( ! FoundSequenceDelimiter) { - g = ReadInt16(); - n = ReadInt16(); - - long l = ftell(fp); - - if (errno == 1) - return 0; - TotalLength += 4; // We even have to decount the group and element - - if ( g != 0xfffe && g!=0xb00c ) /*for bogus header */ { - char msg[100]; // for sprintf. Sorry - sprintf(msg,"wrong group (%04x) for an item sequence (%04x,%04x)\n",g, g,n); - dbg.Verbose(1, "gdcmHeader::FindLengthOB: ",msg); - long l = ftell(fp); - errno = 1; - return 0; - } - if ( n == 0xe0dd || ( g==0xb00c && n==0x0eb6 ) ) /* for bogus header */ - FoundSequenceDelimiter = true; - else if ( n != 0xe000 ){ - char msg[100]; // for sprintf. Sorry - sprintf(msg,"wrong element (%04x) for an item sequence (%04x,%04x)\n",n, g,n); - dbg.Verbose(1, "gdcmHeader::FindLengthOB: ",msg); - errno = 1; - return 0; - } - ItemLength = ReadInt32(); - TotalLength += ItemLength + 4; // We add 4 bytes since we just read - // the ItemLength with ReadInt32 - - SkipBytes(ItemLength); - } - fseek(fp, PositionOnEntry, SEEK_SET); - return TotalLength; -} - -/** - * \ingroup gdcmHeader - * \brief - * - * @return - */ - void gdcmHeader::FindLength (gdcmElValue * ElVal) { - guint16 element = ElVal->GetElement(); - guint16 group = ElVal->GetGroup(); - string vr = ElVal->GetVR(); - guint16 length16; - if( (element == 0x0010) && (group == 0x7fe0) ) { - dbg.SetDebug(0); - dbg.Verbose(2, "gdcmHeader::FindLength: ", - "on est sur 7fe0 0010"); - } - - if ( (filetype == ExplicitVR) && ! ElVal->IsImplicitVr() ) { - if ( (vr=="OB") || (vr=="OW") || (vr=="SQ") || (vr=="UN") ) { - - // The following reserved two bytes (see PS 3.5-2001, section - // 7.1.2 Data element structure with explicit vr p27) must be - // skipped before proceeding on reading the length on 4 bytes. - fseek(fp, 2L, SEEK_CUR); - - guint32 length32 = ReadInt32(); - if ( (vr == "OB") && (length32 == 0xffffffff) ) { - ElVal->SetLength(FindLengthOB()); - return; - } - FixFoundLength(ElVal, length32); - return; - } - - // Length is encoded on 2 bytes. - length16 = ReadInt16(); - - // We can tell the current file is encoded in big endian (like - // Data/US-RGB-8-epicard) when we find the "Transfer Syntax" tag - // and it's value is the one of the encoding of a big endian file. - // In order to deal with such big endian encoded files, we have - // (at least) two strategies: - // * when we load the "Transfer Syntax" tag with value of big endian - // encoding, we raise the proper flags. Then we wait for the end - // of the META group (0x0002) among which is "Transfer Syntax", - // before switching the swap code to big endian. We have to postpone - // the switching of the swap code since the META group is fully encoded - // in little endian, and big endian coding only starts at the next - // group. The corresponding code can be hard to analyse and adds - // many additional unnecessary tests for regular tags. - // * the second strategy consists in waiting for trouble, that shall - // appear when we find the first group with big endian encoding. This - // is easy to detect since the length of a "Group Length" tag (the - // ones with zero as element number) has to be of 4 (0x0004). When we - // encouter 1024 (0x0400) chances are the encoding changed and we - // found a group with big endian encoding. - // We shall use this second strategy. In order to make sure that we - // can interpret the presence of an apparently big endian encoded - // length of a "Group Length" without committing a big mistake, we - // add an additional check: we look in the already parsed elements - // for the presence of a "Transfer Syntax" whose value has to be "big - // endian encoding". When this is the case, chances are we have got our - // hands on a big endian encoded file: we switch the swap code to - // big endian and proceed... - if ( (element == 0x0000) && (length16 == 0x0400) ) { - if ( ! IsExplicitVRBigEndianTransferSyntax() ) { - dbg.Verbose(0, "gdcmHeader::FindLength", "not explicit VR"); - errno = 1; - return; - } - length16 = 4; - SwitchSwapToBigEndian(); - // Restore the unproperly loaded values i.e. the group, the element - // and the dictionary entry depending on them. - guint16 CorrectGroup = SwapShort(ElVal->GetGroup()); - guint16 CorrectElem = SwapShort(ElVal->GetElement()); - gdcmDictEntry * NewTag = GetDictEntryByNumber(CorrectGroup, - CorrectElem); - if (!NewTag) { - // This correct tag is not in the dictionary. Create a new one. - NewTag = new gdcmDictEntry(CorrectGroup, CorrectElem); - } - // FIXME this can create a memory leaks on the old entry that be - // left unreferenced. - ElVal->SetDictEntry(NewTag); - } - - // Heuristic: well some files are really ill-formed. - if ( length16 == 0xffff) { - length16 = 0; - dbg.Verbose(0, "gdcmHeader::FindLength", - "Erroneous element length fixed."); - } - FixFoundLength(ElVal, (guint32)length16); - return; - } - - // Either implicit VR or a non DICOM conformal (see not below) explicit - // VR that ommited the VR of (at least) this element. Farts happen. - // [Note: according to the part 5, PS 3.5-2001, section 7.1 p25 - // on Data elements "Implicit and Explicit VR Data Elements shall - // not coexist in a Data Set and Data Sets nested within it".] - // Length is on 4 bytes. - FixFoundLength(ElVal, ReadInt32()); -} - -/** - * \ingroup gdcmHeader - * \brief Swaps back the bytes of 4-byte long integer accordingly to - * processor order. - * - * @return The suggested integer. - */ -guint32 gdcmHeader::SwapLong(guint32 a) { - switch (sw) { - case 0 : - break; - case 4321 : - a=( ((a<<24) & 0xff000000) | ((a<<8) & 0x00ff0000) | - ((a>>8) & 0x0000ff00) | ((a>>24) & 0x000000ff) ); - break; - - case 3412 : - a=( ((a<<16) & 0xffff0000) | ((a>>16) & 0x0000ffff) ); - break; - - case 2143 : - a=( ((a<<8) & 0xff00ff00) | ((a>>8) & 0x00ff00ff) ); - break; - default : - dbg.Error(" gdcmHeader::SwapLong : unset swap code"); - a=0; - } - return(a); -} - -/** - * \ingroup gdcmHeader - * \brief Swaps the bytes so they agree with the processor order - * @return The properly swaped 16 bits integer. - */ -guint16 gdcmHeader::SwapShort(guint16 a) { - if ( (sw==4321) || (sw==2143) ) - a =(((a<<8) & 0x0ff00) | ((a>>8)&0x00ff)); - return (a); -} - -/** - * \ingroup gdcmHeader - * \brief - * - * @return - */ - void gdcmHeader::SkipBytes(guint32 NBytes) { - //FIXME don't dump the returned value - (void)fseek(fp, (long)NBytes, SEEK_CUR); -} - -/** - * \ingroup gdcmHeader - * \brief - * - * @return - */ - void gdcmHeader::SkipElementValue(gdcmElValue * ElVal) { - SkipBytes(ElVal->GetLength()); -} - -/** - * \ingroup gdcmHeader - * \brief - * - * @return - */ - void gdcmHeader::SetMaxSizeLoadElementValue(long NewSize) { - if (NewSize < 0) - return; - if ((guint32)NewSize >= (guint32)0xffffffff) { - MaxSizeLoadElementValue = 0xffffffff; - return; - } - MaxSizeLoadElementValue = NewSize; -} - -/** - * \ingroup gdcmHeader - * \brief Loads the element content if it's length is not bigger - * than the value specified with - * gdcmHeader::SetMaxSizeLoadElementValue() - */ -void gdcmHeader::LoadElementValue(gdcmElValue * ElVal) { - size_t item_read; - guint16 group = ElVal->GetGroup(); - string vr = ElVal->GetVR(); - guint32 length = ElVal->GetLength(); - bool SkipLoad = false; - - fseek(fp, (long)ElVal->GetOffset(), SEEK_SET); - - // FIXME Sequences not treated yet ! - // - // Ne faudrait-il pas au contraire trouver immediatement - // une maniere 'propre' de traiter les sequences (vr = SQ) - // car commencer par les ignorer risque de conduire a qq chose - // qui pourrait ne pas etre generalisable - // Well, I'm expecting your code !!! - - if( vr == "SQ" ) - SkipLoad = true; - - // Heuristic : a sequence "contains" a set of tags (called items). It looks - // like the last tag of a sequence (the one that terminates the sequence) - // has a group of 0xfffe (with a dummy length). - if( group == 0xfffe ) - SkipLoad = true; - - if ( SkipLoad ) { - ElVal->SetLength(0); - ElVal->SetValue("gdcm::Skipped"); - return; - } - - // When the length is zero things are easy: - if ( length == 0 ) { - ElVal->SetValue(""); - return; - } - - // The elements whose length is bigger than the specified upper bound - // are not loaded. Instead we leave a short notice of the offset of - // the element content and it's length. - if (length > MaxSizeLoadElementValue) { - ostringstream s; - s << "gdcm::NotLoaded."; - s << " Address:" << (long)ElVal->GetOffset(); - s << " Length:" << ElVal->GetLength(); - ElVal->SetValue(s.str()); - return; - } - - // When an integer is expected, read and convert the following two or - // four bytes properly i.e. as an integer as opposed to a string. - - // pour les elements de Value Multiplicity > 1 - // on aura en fait une serie d'entiers - // on devrait pouvoir faire + compact (?) - - if ( IsAnInteger(ElVal) ) { - guint32 NewInt; - ostringstream s; - int nbInt; - if (vr == "US" || vr == "SS") { - nbInt = length / 2; - NewInt = ReadInt16(); - s << NewInt; - if (nbInt > 1) { - for (int i=1; i < nbInt; i++) { - s << '\\'; - NewInt = ReadInt16(); - s << NewInt; - } - } - - } else if (vr == "UL" || vr == "SL") { - nbInt = length / 4; - NewInt = ReadInt32(); - s << NewInt; - if (nbInt > 1) { - for (int i=1; i < nbInt; i++) { - s << '\\'; - NewInt = ReadInt32(); - s << NewInt; - } - } - } - ElVal->SetValue(s.str()); - return; - } - - // We need an additional byte for storing \0 that is not on disk - char* NewValue = (char*)malloc(length+1); - if( !NewValue) { - dbg.Verbose(1, "LoadElementValue: Failed to allocate NewValue"); - return; - } - NewValue[length]= 0; - - item_read = fread(NewValue, (size_t)length, (size_t)1, fp); - if ( item_read != 1 ) { - free(NewValue); - dbg.Verbose(1, "gdcmHeader::LoadElementValue","unread element value"); - ElVal->SetValue("gdcm::UnRead"); - return; - } - ElVal->SetValue(NewValue); - free(NewValue); -} - -/** - * \ingroup gdcmHeader - * \brief Loads the element while preserving the current - * underlying file position indicator as opposed to - * to LoadElementValue that modifies it. - * @param ElVal Element whose value shall be loaded. - * @return - */ -void gdcmHeader::LoadElementValueSafe(gdcmElValue * ElVal) { - long PositionOnEntry = ftell(fp); - LoadElementValue(ElVal); - fseek(fp, PositionOnEntry, SEEK_SET); -} - -/** - * \ingroup gdcmHeader - * \brief - * - * @return - */ -guint16 gdcmHeader::ReadInt16(void) { - guint16 g; - size_t item_read; - item_read = fread (&g, (size_t)2,(size_t)1, fp); - if ( item_read != 1 ) { - // dbg.Verbose(0, "gdcmHeader::ReadInt16", " Failed to read :"); - // if(feof(fp)) - // dbg.Verbose(0, "gdcmHeader::ReadInt16", " End of File encountered"); - if(ferror(fp)) - dbg.Verbose(0, "gdcmHeader::ReadInt16", " File Error"); - errno = 1; - return 0; - } - errno = 0; - g = SwapShort(g); - return g; -} - -/** - * \ingroup gdcmHeader - * \brief - * - * @return - */ -guint32 gdcmHeader::ReadInt32(void) { - guint32 g; - size_t item_read; - item_read = fread (&g, (size_t)4,(size_t)1, fp); - if ( item_read != 1 ) { - //dbg.Verbose(0, "gdcmHeader::ReadInt32", " Failed to read :"); - //if(feof(fp)) - // dbg.Verbose(0, "gdcmHeader::ReadInt32", " End of File encountered"); - if(ferror(fp)) - dbg.Verbose(0, "gdcmHeader::ReadInt32", " File Error"); - errno = 1; - return 0; - } - errno = 0; - g = SwapLong(g); - return g; -} - -/** - * \ingroup gdcmHeader - * \brief - * - * @return - */ - gdcmElValue* gdcmHeader::GetElValueByNumber(guint16 Group, guint16 Elem) { - - gdcmElValue* elValue = PubElValSet.GetElementByNumber(Group, Elem); - if (!elValue) { - dbg.Verbose(1, "gdcmHeader::GetElValueByNumber", - "failed to Locate gdcmElValue"); - return (gdcmElValue*)0; - } - return elValue; -} - -/** - * \ingroup gdcmHeader - * \brief Build a new Element Value from all the low level arguments. - * Check for existence of dictionary entry, and build - * a default one when absent. - * @param Group group of the underlying DictEntry - * @param Elem element of the underlying DictEntry - */ -gdcmElValue* gdcmHeader::NewElValueByNumber(guint16 Group, guint16 Elem) { - // Find out if the tag we encountered is in the dictionaries: - gdcmDictEntry * NewTag = GetDictEntryByNumber(Group, Elem); - if (!NewTag) - NewTag = new gdcmDictEntry(Group, Elem); - - gdcmElValue* NewElVal = new gdcmElValue(NewTag); - if (!NewElVal) { - dbg.Verbose(1, "gdcmHeader::NewElValueByNumber", - "failed to allocate gdcmElValue"); - return (gdcmElValue*)0; - } - return NewElVal; -} - -/** - * \ingroup gdcmHeader - * \brief TODO - * @param Value - * @param Group - * @param Elem - */ -int gdcmHeader::ReplaceOrCreateByNumber(string Value, guint16 Group, guint16 Elem ) { - - // TODO : FIXME JPRx - // curieux, non ? - // on (je) cree une Elvalue ne contenant pas de valeur - // on l'ajoute au ElValSet - // on affecte une valeur a cette ElValue a l'interieur du ElValSet - // --> devrait pouvoir etre fait + simplement ??? - - gdcmElValue* nvElValue=NewElValueByNumber(Group, Elem); - PubElValSet.Add(nvElValue); - PubElValSet.SetElValueByNumber(Value, Group, Elem); - return(1); -} - - -/** - * \ingroup gdcmHeader - * \brief TODO - * @param Value - * @param Group - * @param Elem - */ -int gdcmHeader::ReplaceOrCreateByNumber(char* Value, guint16 Group, guint16 Elem ) { - - gdcmElValue* nvElValue=NewElValueByNumber(Group, Elem); - PubElValSet.Add(nvElValue); - string v = Value; - PubElValSet.SetElValueByNumber(v, Group, Elem); - return(1); -} - -/** - * \ingroup gdcmHeader - * \brief TODO - * @param Group - * @param Elem - */ - -int gdcmHeader::CheckIfExistByNumber(guint16 Group, guint16 Elem ) { - return (PubElValSet.CheckIfExistByNumber(Group, Elem)); - } - - -/** - * \ingroup gdcmHeader - * \brief Build a new Element Value from all the low level arguments. - * Check for existence of dictionary entry, and build - * a default one when absent. - * @param Name Name of the underlying DictEntry - */ -gdcmElValue* gdcmHeader::NewElValueByName(string Name) { - - gdcmDictEntry * NewTag = GetDictEntryByName(Name); - if (!NewTag) - NewTag = new gdcmDictEntry(0xffff, 0xffff, "LO", "Unknown", Name); - - gdcmElValue* NewElVal = new gdcmElValue(NewTag); - if (!NewElVal) { - dbg.Verbose(1, "gdcmHeader::ObtainElValueByName", - "failed to allocate gdcmElValue"); - return (gdcmElValue*)0; - } - return NewElVal; -} - -/** - * \ingroup gdcmHeader - * \brief Read the next tag but WITHOUT loading it's value - * @return On succes the newly created ElValue, NULL on failure. - */ -gdcmElValue * gdcmHeader::ReadNextElement(void) { - - guint16 g,n; - gdcmElValue * NewElVal; - - g = ReadInt16(); - n = ReadInt16(); - - if ( (g==0x7fe0) && (n==0x0010) ) - if (DEBUG) - printf("in gdcmHeader::ReadNextElement try to read 7fe0 0010 \n"); - - if (errno == 1) - // We reached the EOF (or an error occured) and header parsing - // has to be considered as finished. - return (gdcmElValue *)0; - - NewElVal = NewElValueByNumber(g, n); - FindVR(NewElVal); - FindLength(NewElVal); - if (errno == 1) { - // Call it quits - if (DEBUG) printf("in gdcmHeader::ReadNextElement : g %04x n %04x errno %d\n",g, n, errno); - return (gdcmElValue *)0; - } - NewElVal->SetOffset(ftell(fp)); - if ( (g==0x7fe0) && (n==0x0010) ) - if (DEBUG) - printf("sortie de gdcmHeader::ReadNextElement 7fe0 0010 \n"); - return NewElVal; -} - -/** - * \ingroup gdcmHeader - * \brief Apply some heuristics to predict wether the considered - * element value contains/represents an integer or not. - * @param ElVal The element value on which to apply the predicate. - * @return The result of the heuristical predicate. - */ -bool gdcmHeader::IsAnInteger(gdcmElValue * ElVal) { - guint16 group = ElVal->GetGroup(); - guint16 element = ElVal->GetElement(); - string vr = ElVal->GetVR(); - guint32 length = ElVal->GetLength(); - - // When we have some semantics on the element we just read, and if we - // a priori know we are dealing with an integer, then we shall be - // able to swap it's element value properly. - if ( element == 0 ) { // This is the group length of the group - if (length == 4) - return true; - else { - if (DEBUG) printf("Erroneous Group Length element length (%04x , %04x) : %d\n", - group, element,length); - - dbg.Error("gdcmHeader::IsAnInteger", - "Erroneous Group Length element length."); - } - } - if ( (vr == "UL") || (vr == "US") || (vr == "SL") || (vr == "SS") ) - return true; - - return false; -} - -/** - * \ingroup gdcmHeader - * \brief Recover the offset (from the beginning of the file) of the pixels. - */ -size_t gdcmHeader::GetPixelOffset(void) { - // If this file complies with the norm we should encounter the - // "Image Location" tag (0x0028, 0x0200). This tag contains the +#include "gdcmHeader.h" +#include "gdcmGlobal.h" +#include "gdcmUtil.h" +#include "gdcmDebug.h" +#include "gdcmTS.h" +#include "gdcmValEntry.h" + +#include + +//----------------------------------------------------------------------------- +// Constructor / Destructor +/** + * \brief Constructor + * @param InFilename name of the file whose header we want to analyze + * @param exception_on_error whether we want to throw an exception or not + * @param enable_sequences = true to allow the header + * to be parsed *inside* the SeQuences, when they have an actual length + * @param ignore_shadow = true if user wants to skip shadow groups + * during parsing, to save memory space + */ +gdcmHeader::gdcmHeader(std::string const & filename, + bool exception_on_error, + bool enable_sequences, + bool ignore_shadow): + gdcmDocument(filename,exception_on_error,enable_sequences,ignore_shadow) +{ + // for some ACR-NEMA images GrPixel, NumPixel is *not* 7fe0,0010 + // We may encounter the 'RETired' (0x0028, 0x0200) tag + // (Image Location") . This Element contains the number of // the group that contains the pixel data (hence the "Pixel Data" // is found by indirection through the "Image Location"). // Inside the group pointed by "Image Location" the searched element // is conventionally the element 0x0010 (when the norm is respected). // When the "Image Location" is absent we default to group 0x7fe0. - guint16 grPixel; - guint16 numPixel; - string ImageLocation = GetPubElValByName("Image Location"); - if ( ImageLocation == "gdcm::Unfound" ) { - grPixel = 0x7fe0; + + // This IS the right place for the code + + std::string ImageLocation = GetEntryByNumber(0x0028, 0x0200); + if ( ImageLocation == GDCM_UNFOUND ) { // Image Location + GrPixel = 0x7fe0; // default value } else { - grPixel = (guint16) atoi( ImageLocation.c_str() ); - } - if (grPixel != 0x7fe0) + GrPixel = (guint16) atoi( ImageLocation.c_str() ); + } + if (GrPixel == 0xe07f) // sometimes Image Location value doesn't follow + GrPixel = 0x7fe0; // the supposed processor endianity. + // see gdcmData/cr172241.dcm + if (GrPixel != 0x7fe0) { // This is a kludge for old dirty Philips imager. - numPixel = 0x1010; - else - numPixel = 0x0010; - - gdcmElValue* PixelElement = PubElValSet.GetElementByNumber(grPixel, - numPixel); - if (PixelElement) - return PixelElement->GetOffset(); - else - return 0; -} - -/** - * \ingroup gdcmHeader - * \brief Searches both the public and the shadow dictionary (when they - * exist) for the presence of the DictEntry with given - * group and element. The public dictionary has precedence on the - * shadow one. - * @param group group of the searched DictEntry - * @param element element of the searched DictEntry - * @return Corresponding DictEntry when it exists, NULL otherwise. - */ -gdcmDictEntry * gdcmHeader::GetDictEntryByNumber(guint16 group, - guint16 element) { - gdcmDictEntry * found = (gdcmDictEntry*)0; - if (!RefPubDict && !RefShaDict) { - dbg.Verbose(0, "gdcmHeader::GetDictEntry", - "we SHOULD have a default dictionary"); - } - if (RefPubDict) { - found = RefPubDict->GetTagByNumber(group, element); - if (found) - return found; - } - if (RefShaDict) { - found = RefShaDict->GetTagByNumber(group, element); - if (found) - return found; - } - return found; -} - -/** - * \ingroup gdcmHeader - * \brief Searches both the public and the shadow dictionary (when they - * exist) for the presence of the DictEntry with given name. - * The public dictionary has precedence on the shadow one. - * @param Name name of the searched DictEntry - * @return Corresponding DictEntry when it exists, NULL otherwise. - */ -gdcmDictEntry * gdcmHeader::GetDictEntryByName(string Name) { - gdcmDictEntry * found = (gdcmDictEntry*)0; - if (!RefPubDict && !RefShaDict) { - dbg.Verbose(0, "gdcmHeader::GetDictEntry", - "we SHOULD have a default dictionary"); - } - if (RefPubDict) { - found = RefPubDict->GetTagByName(Name); - if (found) - return found; - } - if (RefShaDict) { - found = RefShaDict->GetTagByName(Name); - if (found) - return found; + NumPixel = 0x1010; + } else { + NumPixel = 0x0010; } - return found; -} - -/** - * \ingroup gdcmHeader - * \brief Searches within the public dictionary for element value of - * a given tag. - * @param group Group of the researched tag. - * @param element Element of the researched tag. - * @return Corresponding element value when it exists, and the string - * "gdcm::Unfound" otherwise. - */ -string gdcmHeader::GetPubElValByNumber(guint16 group, guint16 element) { - return PubElValSet.GetElValueByNumber(group, element); -} - -/** - * \ingroup gdcmHeader - * \brief Searches within the public dictionary for element value - * representation of a given tag. - * - * Obtaining the VR (Value Representation) might be needed by caller - * to convert the string typed content to caller's native type - * (think of C++ vs Python). The VR is actually of a higher level - * of semantics than just the native C++ type. - * @param group Group of the researched tag. - * @param element Element of the researched tag. - * @return Corresponding element value representation when it exists, - * and the string "gdcm::Unfound" otherwise. - */ -string gdcmHeader::GetPubElValRepByNumber(guint16 group, guint16 element) { - gdcmElValue* elem = PubElValSet.GetElementByNumber(group, element); - if ( !elem ) - return "gdcm::Unfound"; - return elem->GetVR(); -} - -/** - * \ingroup gdcmHeader - * \brief Searches within the public dictionary for element value of - * a given tag. - * @param TagName name of the researched element. - * @return Corresponding element value when it exists, and the string - * "gdcm::Unfound" otherwise. - */ -string gdcmHeader::GetPubElValByName(string TagName) { - return PubElValSet.GetElValueByName(TagName); } /** - * \ingroup gdcmHeader - * \brief Searches within the elements parsed with the public dictionary for - * the element value representation of a given tag. - * - * Obtaining the VR (Value Representation) might be needed by caller - * to convert the string typed content to caller's native type - * (think of C++ vs Python). The VR is actually of a higher level - * of semantics than just the native C++ type. - * @param TagName name of the researched element. - * @return Corresponding element value representation when it exists, - * and the string "gdcm::Unfound" otherwise. - */ -string gdcmHeader::GetPubElValRepByName(string TagName) { - gdcmElValue* elem = PubElValSet.GetElementByName(TagName); - if ( !elem ) - return "gdcm::Unfound"; - return elem->GetVR(); -} - -/** - * \ingroup gdcmHeader - * \brief Searches within elements parsed with the SHADOW dictionary - * for the element value of a given tag. - * @param group Group of the researched tag. - * @param element Element of the researched tag. - * @return Corresponding element value representation when it exists, - * and the string "gdcm::Unfound" otherwise. - */ -string gdcmHeader::GetShaElValByNumber(guint16 group, guint16 element) { - return ShaElValSet.GetElValueByNumber(group, element); -} - -/** - * \ingroup gdcmHeader - * \brief Searches within the elements parsed with the SHADOW dictionary - * for the element value representation of a given tag. - * - * Obtaining the VR (Value Representation) might be needed by caller - * to convert the string typed content to caller's native type - * (think of C++ vs Python). The VR is actually of a higher level - * of semantics than just the native C++ type. - * @param group Group of the researched tag. - * @param element Element of the researched tag. - * @return Corresponding element value representation when it exists, - * and the string "gdcm::Unfound" otherwise. - */ -string gdcmHeader::GetShaElValRepByNumber(guint16 group, guint16 element) { - gdcmElValue* elem = ShaElValSet.GetElementByNumber(group, element); - if ( !elem ) - return "gdcm::Unfound"; - return elem->GetVR(); -} - -/** - * \ingroup gdcmHeader - * \brief Searches within the elements parsed with the shadow dictionary - * for an element value of given tag. - * @param TagName name of the researched element. - * @return Corresponding element value when it exists, and the string - * "gdcm::Unfound" otherwise. - */ -string gdcmHeader::GetShaElValByName(string TagName) { - return ShaElValSet.GetElValueByName(TagName); -} - -/** - * \ingroup gdcmHeader - * \brief Searches within the elements parsed with the shadow dictionary for - * the element value representation of a given tag. - * - * Obtaining the VR (Value Representation) might be needed by caller - * to convert the string typed content to caller's native type - * (think of C++ vs Python). The VR is actually of a higher level - * of semantics than just the native C++ type. - * @param TagName name of the researched element. - * @return Corresponding element value representation when it exists, - * and the string "gdcm::Unfound" otherwise. - */ -string gdcmHeader::GetShaElValRepByName(string TagName) { - gdcmElValue* elem = ShaElValSet.GetElementByName(TagName); - if ( !elem ) - return "gdcm::Unfound"; - return elem->GetVR(); -} - -/** - * \ingroup gdcmHeader - * \brief Searches within elements parsed with the public dictionary - * and then within the elements parsed with the shadow dictionary - * for the element value of a given tag. - * @param group Group of the researched tag. - * @param element Element of the researched tag. - * @return Corresponding element value representation when it exists, - * and the string "gdcm::Unfound" otherwise. - */ -string gdcmHeader::GetElValByNumber(guint16 group, guint16 element) { - string pub = GetPubElValByNumber(group, element); - if (pub.length()) - return pub; - return GetShaElValByNumber(group, element); -} - -/** - * \ingroup gdcmHeader - * \brief Searches within elements parsed with the public dictionary - * and then within the elements parsed with the shadow dictionary - * for the element value representation of a given tag. - * - * Obtaining the VR (Value Representation) might be needed by caller - * to convert the string typed content to caller's native type - * (think of C++ vs Python). The VR is actually of a higher level - * of semantics than just the native C++ type. - * @param group Group of the researched tag. - * @param element Element of the researched tag. - * @return Corresponding element value representation when it exists, - * and the string "gdcm::Unfound" otherwise. - */ -string gdcmHeader::GetElValRepByNumber(guint16 group, guint16 element) { - string pub = GetPubElValRepByNumber(group, element); - if (pub.length()) - return pub; - return GetShaElValRepByNumber(group, element); -} - -/** - * \ingroup gdcmHeader - * \brief Searches within elements parsed with the public dictionary - * and then within the elements parsed with the shadow dictionary - * for the element value of a given tag. - * @param TagName name of the researched element. - * @return Corresponding element value when it exists, - * and the string "gdcm::Unfound" otherwise. - */ -string gdcmHeader::GetElValByName(string TagName) { - string pub = GetPubElValByName(TagName); - if (pub.length()) - return pub; - return GetShaElValByName(TagName); -} - -/** - * \ingroup gdcmHeader - * \brief Searches within elements parsed with the public dictionary - * and then within the elements parsed with the shadow dictionary - * for the element value representation of a given tag. - * - * Obtaining the VR (Value Representation) might be needed by caller - * to convert the string typed content to caller's native type - * (think of C++ vs Python). The VR is actually of a higher level - * of semantics than just the native C++ type. - * @param TagName name of the researched element. - * @return Corresponding element value representation when it exists, - * and the string "gdcm::Unfound" otherwise. - */ -string gdcmHeader::GetElValRepByName(string TagName) { - string pub = GetPubElValRepByName(TagName); - if (pub.length()) - return pub; - return GetShaElValRepByName(TagName); -} - -/** - * \ingroup gdcmHeader - * \brief Accesses an existing gdcmElValue in the PubElValSet of this instance - * through it's (group, element) and modifies it's content with - * the given value. - * @param content new value to substitute with - * @param group group of the ElVal to modify - * @param element element of the ElVal to modify + * \brief Constructor + * @param exception_on_error whether we want to throw an exception or not */ -int gdcmHeader::SetPubElValByNumber(string content, guint16 group, - guint16 element) - -//TODO : homogeneiser les noms : SetPubElValByNumber qui appelle PubElValSet.SetElValueByNumber -// pourquoi pas SetPubElValueByNumber ?? +gdcmHeader::gdcmHeader(bool exception_on_error) : + gdcmDocument(exception_on_error) { - - return ( PubElValSet.SetElValueByNumber (content, group, element) ); } /** * \ingroup gdcmHeader - * \brief Accesses an existing gdcmElValue in the PubElValSet of this instance - * through tag name and modifies it's content with the given value. - * @param content new value to substitute with - * @param TagName name of the tag to be modified + * \brief Canonical destructor. */ -int gdcmHeader::SetPubElValByName(string content, string TagName) { - return ( PubElValSet.SetElValueByName (content, TagName) ); +gdcmHeader::~gdcmHeader () { } -/** - * \ingroup gdcmHeader - * \brief Accesses an existing gdcmElValue in the PubElValSet of this instance - * through it's (group, element) and modifies it's length with - * the given value. - * \warning Use with extreme caution. - * @param length new length to substitute with - * @param group group of the ElVal to modify - * @param element element of the ElVal to modify - * @return 1 on success, 0 otherwise. - */ - -int gdcmHeader::SetPubElValLengthByNumber(guint32 length, guint16 group, - guint16 element) { - return ( PubElValSet.SetElValueLengthByNumber (length, group, element) ); -} +//----------------------------------------------------------------------------- +// Print -/** - * \ingroup gdcmHeader - * \brief Accesses an existing gdcmElValue in the ShaElValSet of this instance - * through it's (group, element) and modifies it's content with - * the given value. - * @param content new value to substitute with - * @param group group of the ElVal to modify - * @param element element of the ElVal to modify - * @return 1 on success, 0 otherwise. - */ -int gdcmHeader::SetShaElValByNumber(string content, - guint16 group, guint16 element) { - return ( ShaElValSet.SetElValueByNumber (content, group, element) ); -} -/** - * \ingroup gdcmHeader - * \brief Accesses an existing gdcmElValue in the ShaElValSet of this instance - * through tag name and modifies it's content with the given value. - * @param content new value to substitute with - * @param ShadowTagName name of the tag to be modified - */ -int gdcmHeader::SetShaElValByName(string content, string ShadowTagName) { - return ( ShaElValSet.SetElValueByName (content, ShadowTagName) ); -} +//----------------------------------------------------------------------------- +// Public /** - * \ingroup gdcmHeader - * \brief Parses the header of the file but WITHOUT loading element values. + * \brief This predicate, based on hopefully reasonable heuristics, + * decides whether or not the current gdcmHeader was properly parsed + * and contains the mandatory information for being considered as + * a well formed and usable Dicom/Acr File. + * @return true when gdcmHeader is the one of a reasonable Dicom/Acr file, + * false otherwise. */ -void gdcmHeader::ParseHeader(bool exception_on_error) throw(gdcmFormatError) { - gdcmElValue * newElValue = (gdcmElValue *)0; - - rewind(fp); - CheckSwap(); - while ( (newElValue = ReadNextElement()) ) { - SkipElementValue(newElValue); - PubElValSet.Add(newElValue); +bool gdcmHeader::IsReadable() { + if(!gdcmDocument::IsReadable()) { + return false; } + std::string res = GetEntryByNumber(0x0028, 0x0005); + if ( res != GDCM_UNFOUND && atoi(res.c_str()) > 4 ) + return false; // Image Dimensions + if ( !GetDocEntryByNumber(0x0028, 0x0100) ) + return false; // "Bits Allocated" + if ( !GetDocEntryByNumber(0x0028, 0x0101) ) + return false; // "Bits Stored" + if ( !GetDocEntryByNumber(0x0028, 0x0102) ) + return false; // "High Bit" + if ( !GetDocEntryByNumber(0x0028, 0x0103) ) + return false; // "Pixel Representation" i.e. 'Sign' + return true; } - -// -// TODO : JPR -// des que les element values sont chargees, stocker, -// en une seule fois, dans des entiers -// NX, NY, NZ, Bits allocated, Bits Stored, High Bit, Samples Per Pixel -// (TODO : preciser les autres) -// et refaire ceux des accesseurs qui renvoient les entiers correspondants -// -// --> peut etre dangereux ? -// si l'utilisateur modifie 'manuellement' l'un des paramètres -// l'entier de sera pas modifié ... -// (pb de la mise à jour en cas de redondance :-( - /** - * \ingroup gdcmHeader * \brief Retrieve the number of columns of image. * @return The encountered size when found, 0 by default. + * 0 means the file is NOT USABLE. The caller will have to check */ -int gdcmHeader::GetXSize(void) { - // We cannot check for "Columns" because the "Columns" tag is present - // both in IMG (0028,0011) and OLY (6000,0011) sections of the dictionary. - string StrSize = GetPubElValByNumber(0x0028,0x0011); - if (StrSize == "gdcm::Unfound") +int gdcmHeader::GetXSize() { + std::string StrSize; + StrSize = GetEntryByNumber(0x0028,0x0011); + if (StrSize == GDCM_UNFOUND) return 0; return atoi(StrSize.c_str()); } @@ -1583,298 +136,97 @@ int gdcmHeader::GetXSize(void) { * \ingroup gdcmHeader * \brief Retrieve the number of lines of image. * \warning The defaulted value is 1 as opposed to gdcmHeader::GetXSize() - * @return The encountered size when found, 1 by default. - */ -int gdcmHeader::GetYSize(void) { - // We cannot check for "Rows" because the "Rows" tag is present - // both in IMG (0028,0010) and OLY (6000,0010) sections of the dictionary. - string StrSize = GetPubElValByNumber(0x0028,0x0010); - if (StrSize != "gdcm::Unfound") - return atoi(StrSize.c_str()); - if ( IsDicomV3() ) - return 0; - else - // The Rows (0028,0010) entry is optional for ACR/NEMA. It might - // hence be a signal (1d image). So we default to 1: - return 1; -} - -/** - * \ingroup gdcmHeader - * \brief Retrieve the number of planes of volume or the number - * of frames of a multiframe. - * \warning When present we consider the "Number of Frames" as the third - * dimension. When absent we consider the third dimension as - * being the "Planes" tag content. - * @return The encountered size when found, 1 by default. - */ -int gdcmHeader::GetZSize(void) { - // Both in DicomV3 and ACR/Nema the consider the "Number of Frames" - // as the third dimension. - string StrSize = GetPubElValByNumber(0x0028,0x0008); - if (StrSize != "gdcm::Unfound") - return atoi(StrSize.c_str()); - - // We then consider the "Planes" entry as the third dimension [we - // cannot retrieve by name since "Planes tag is present both in - // IMG (0028,0012) and OLY (6000,0012) sections of the dictionary]. - StrSize = GetPubElValByNumber(0x0028,0x0012); - if (StrSize != "gdcm::Unfound") - return atoi(StrSize.c_str()); - return 1; -} - -/** - * \ingroup gdcmHeader - * \brief Retrieve the number of Bits Stored - * (as opposite to number of Bits Allocated) - * - * @return The encountered number of Bits Stored, 0 by default. - */ -int gdcmHeader::GetBitsStored(void) { - string StrSize = GetPubElValByNumber(0x0028,0x0101); - if (StrSize == "gdcm::Unfound") - return 1; - return atoi(StrSize.c_str()); -} - - -/** - * \ingroup gdcmHeader - * \brief Retrieve the number of Samples Per Pixel - * (1 : gray level, 3 : RGB) - * - * @return The encountered number of Samples Per Pixel, 1 by default. - */ -int gdcmHeader::GetSamplesPerPixel(void) { - string StrSize = GetPubElValByNumber(0x0028,0x0002); - if (StrSize == "gdcm::Unfound") - return 1; // Well, it's supposed to be mandatory ... - return atoi(StrSize.c_str()); -} - - -/* ================ COMMENT OUT after unfreeze -** - * \ingroup gdcmHeader - * \brief Retrieve the Planar Configuration for RGB images - * (0 : RGB Pixels , 1 : R Plane + G Plane + B Plane) - * - * @return The encountered Planar Configuration, 0 by default. - * -int gdcmHeader::GetPlanarConfiguration(void) { - string StrSize = GetPubElValByNumber(0x0028,0x0006); - if (StrSize == "gdcm::Unfound") - return 0; - return atoi(StrSize.c_str()); -} - - ======================================= */ - -/** - * \ingroup gdcmHeader - * \brief Return the size (in bytes) of a single pixel of data. - * @return The size in bytes of a single pixel of data. - * + * @return The encountered size when found, 1 by default + * (The ACR-NEMA file contains a Signal, not an Image). */ -int gdcmHeader::GetPixelSize(void) { - string PixelType = GetPixelType(); - if (PixelType == "8U" || PixelType == "8S") - return 1; - if (PixelType == "16U" || PixelType == "16S") - return 2; - if (PixelType == "32U" || PixelType == "32S") - return 4; - dbg.Verbose(0, "gdcmHeader::GetPixelSize: Unknown pixel type"); - return 0; -} - -/** - * \ingroup gdcmHeader - * \brief Build the Pixel Type of the image. - * Possible values are: - * - 8U unsigned 8 bit, - * - 8S signed 8 bit, - * - 16U unsigned 16 bit, - * - 16S signed 16 bit, - * - 32U unsigned 32 bit, - * - 32S signed 32 bit, - * \warning 12 bit images appear as 16 bit. - * @return - */ -string gdcmHeader::GetPixelType(void) { - string BitsAlloc; - BitsAlloc = GetElValByName("Bits Allocated"); - if (BitsAlloc == "gdcm::Unfound") { - dbg.Verbose(0, "gdcmHeader::GetPixelType: unfound Bits Allocated"); - BitsAlloc = string("16"); - } - if (BitsAlloc == "12") - BitsAlloc = string("16"); - - string Signed; - Signed = GetElValByName("Pixel Representation"); - if (Signed == "gdcm::Unfound") { - dbg.Verbose(0, "gdcmHeader::GetPixelType: unfound Pixel Representation"); - BitsAlloc = string("0"); - } - if (Signed == "0") - Signed = string("U"); - else - Signed = string("S"); - - return( BitsAlloc + Signed); -} - - -/** - * \ingroup gdcmHeader - * \brief This predicate, based on hopefully reasonnable heuristics, - * decides whether or not the current gdcmHeader was properly parsed - * and contains the mandatory information for being considered as - * a well formed and usable image. - * @return true when gdcmHeader is the one of a reasonable Dicom file, - * false otherwise. - */ -bool gdcmHeader::IsReadable(void) { - if ( GetElValByName("Image Dimensions") != "gdcm::Unfound" - && atoi(GetElValByName("Image Dimensions").c_str()) > 4 ) { - return false; - } - if ( GetElValByName("Bits Allocated") == "gdcm::Unfound" ) - return false; - if ( GetElValByName("Bits Stored") == "gdcm::Unfound" ) - return false; - if ( GetElValByName("High Bit") == "gdcm::Unfound" ) - return false; - if ( GetElValByName("Pixel Representation") == "gdcm::Unfound" ) - return false; - return true; -} - -/** - * \ingroup gdcmHeader - * \brief Small utility function that creates a new manually crafted - * (as opposed as read from the file) gdcmElValue with user - * specified name and adds it to the public tag hash table. - * \note A fake TagKey is generated so the PubDict can keep it's coherence. - * @param NewTagName The name to be given to this new tag. - * @param VR The Value Representation to be given to this new tag. - * @ return The newly hand crafted Element Value. - */ -gdcmElValue* gdcmHeader::NewManualElValToPubDict(string NewTagName, string VR) { - gdcmElValue* NewElVal = (gdcmElValue*)0; - guint32 StuffGroup = 0xffff; // Group to be stuffed with additional info - guint32 FreeElem = 0; - gdcmDictEntry* NewEntry = (gdcmDictEntry*)0; - - FreeElem = PubElValSet.GenerateFreeTagKeyInGroup(StuffGroup); - if (FreeElem == UINT32_MAX) { - dbg.Verbose(1, "gdcmHeader::NewManualElValToPubDict", - "Group 0xffff in Public Dict is full"); - return (gdcmElValue*)0; - } - NewEntry = new gdcmDictEntry(StuffGroup, FreeElem, - VR, "GDCM", NewTagName); - NewElVal = new gdcmElValue(NewEntry); - PubElValSet.Add(NewElVal); - return NewElVal; -} - -/** - * \ingroup gdcmHeader - * \brief Loads the element values of all the elements present in the - * public tag based hash table. - */ -void gdcmHeader::LoadElements(void) { - rewind(fp); - TagElValueHT ht = PubElValSet.GetTagHt(); - for (TagElValueHT::iterator tag = ht.begin(); tag != ht.end(); ++tag) { - LoadElementValue(tag->second); - } -} - -/** - * \ingroup gdcmHeader - * \brief - * @return - */ -void gdcmHeader::PrintPubElVal(std::ostream & os) { - PubElValSet.Print(os); +int gdcmHeader::GetYSize() { + std::string StrSize = GetEntryByNumber(0x0028,0x0010); + if (StrSize != GDCM_UNFOUND) + return atoi(StrSize.c_str()); + if ( IsDicomV3() ) + return 0; + else + // The Rows (0028,0010) entry was optional for ACR/NEMA. It might + // hence be a signal (1d image). So we default to 1: + return 1; } /** - * \ingroup gdcmHeader - * \brief - * @return - */ -void gdcmHeader::PrintPubDict(std::ostream & os) { - RefPubDict->Print(os); -} + * \ingroup gdcmHeader + * \brief Retrieve the number of planes of volume or the number + * of frames of a multiframe. + * \warning When present we consider the "Number of Frames" as the third + * dimension. When absent we consider the third dimension as + * being the ACR-NEMA "Planes" tag content. + * @return The encountered size when found, 1 by default (single image). + */ +int gdcmHeader::GetZSize() { + // Both DicomV3 and ACR/Nema consider the "Number of Frames" + // as the third dimension. + std::string StrSize = GetEntryByNumber(0x0028,0x0008); + if (StrSize != GDCM_UNFOUND) + return atoi(StrSize.c_str()); -/** - * \ingroup gdcmHeader - * \brief - * @return - */ -int gdcmHeader::Write(FILE * fp, FileType type) { - return PubElValSet.Write(fp, type); + // We then consider the "Planes" entry as the third dimension + StrSize = GetEntryByNumber(0x0028,0x0012); + if (StrSize != GDCM_UNFOUND) + return atoi(StrSize.c_str()); + return 1; } /** * \ingroup gdcmHeader * \brief gets the info from 0028,0030 : Pixel Spacing - * \ else 1. + * else 1.0 * @return X dimension of a pixel */ -float gdcmHeader::GetXSpacing(void) { +float gdcmHeader::GetXSpacing() { float xspacing, yspacing; - string StrSpacing = GetPubElValByNumber(0x0028,0x0030); - - if (StrSpacing == "gdcm::Unfound") { - dbg.Verbose(0, "gdcmHeader::GetXSpacing: unfound Pixel Spacing (0028,0030)"); - return 1.; - } - if( sscanf( StrSpacing.c_str(), "%f\\%f", &xspacing, &yspacing) != 2) - return 0.; - //else - return xspacing; + std::string StrSpacing = GetEntryByNumber(0x0028,0x0030); + + if (StrSpacing == GDCM_UNFOUND) { + dbg.Verbose(0, "gdcmHeader::GetXSpacing: unfound Pixel Spacing (0028,0030)"); + return 1.; + } + int nbValues; + if( (nbValues = sscanf( StrSpacing.c_str(), "%f\\%f", &yspacing, &xspacing)) != 2) { + if (nbValues==1) // if single value is found, xspacing is defaulted to yspacing + return yspacing; + } + if (xspacing == 0.) { + dbg.Verbose(0, "gdcmHeader::GetYSpacing: gdcmData/CT-MONO2-8-abdo.dcm problem"); + // seems to be a bug in the header ... + sscanf( StrSpacing.c_str(), "%f\\0\\%f", &yspacing, &xspacing); + } + return xspacing; } /** * \ingroup gdcmHeader * \brief gets the info from 0028,0030 : Pixel Spacing - * \ else 1. + * else 1.0 * @return Y dimension of a pixel */ -float gdcmHeader::GetYSpacing(void) { - float xspacing, yspacing; - string StrSpacing = GetPubElValByNumber(0x0028,0x0030); +float gdcmHeader::GetYSpacing() { + float yspacing; + std::string StrSpacing = GetEntryByNumber(0x0028,0x0030); - if (StrSpacing == "gdcm::Unfound") { + if (StrSpacing == GDCM_UNFOUND) { dbg.Verbose(0, "gdcmHeader::GetYSpacing: unfound Pixel Spacing (0028,0030)"); return 1.; } - if( sscanf( StrSpacing.c_str(), "%f\\%f", &xspacing, &yspacing) != 2) - return 0.; - if (yspacing == 0.) { - dbg.Verbose(0, "gdcmHeader::GetYSpacing: gdcmData/CT-MONO2-8-abdo.dcm problem"); - // seems to be a bug in the header ... - sscanf( StrSpacing.c_str(), "%f\\0\\%f", &xspacing, &yspacing); - } + sscanf( StrSpacing.c_str(), "%f", &yspacing); return yspacing; } - /** *\ingroup gdcmHeader *\brief gets the info from 0018,0088 : Space Between Slices - *\ else from 0018,0050 : Slice Thickness - *\ else 1. + * else from 0018,0050 : Slice Thickness + * else 1.0 * @return Z dimension of a voxel-to be */ -float gdcmHeader::GetZSpacing(void) { - // TODO : translate into English +float gdcmHeader::GetZSpacing() { // Spacing Between Slices : distance entre le milieu de chaque coupe // Les coupes peuvent etre : // jointives (Spacing between Slices = Slice Thickness) @@ -1885,12 +237,12 @@ float gdcmHeader::GetZSpacing(void) { // Si le Spacing Between Slices est absent, // on suppose que les coupes sont jointives - string StrSpacingBSlices = GetPubElValByNumber(0x0018,0x0088); + std::string StrSpacingBSlices = GetEntryByNumber(0x0018,0x0088); - if (StrSpacingBSlices == "gdcm::Unfound") { + if (StrSpacingBSlices == GDCM_UNFOUND) { dbg.Verbose(0, "gdcmHeader::GetZSpacing: unfound StrSpacingBSlices"); - string StrSliceThickness = GetPubElValByNumber(0x0018,0x0050); - if (StrSliceThickness == "gdcm::Unfound") + std::string StrSliceThickness = GetEntryByNumber(0x0018,0x0050); + if (StrSliceThickness == GDCM_UNFOUND) return 1.; else // if no 'Spacing Between Slices' is found, @@ -1903,6 +255,139 @@ float gdcmHeader::GetZSpacing(void) { } } +/** + *\ingroup gdcmHeader + *\brief gets the info from 0028,1052 : Rescale Intercept + * @return Rescale Intercept + */ +float gdcmHeader::GetRescaleIntercept() { + float resInter = 0.; + std::string StrRescInter = GetEntryByNumber(0x0028,0x1052); //0028 1052 DS IMG Rescale Intercept + if (StrRescInter != GDCM_UNFOUND) { + if( sscanf( StrRescInter.c_str(), "%f", &resInter) != 1) { + dbg.Verbose(0, "gdcmHeader::GetRescaleIntercept: Rescale Slope is empty"); + // bug in the element 0x0028,0x1052 + } + } + return resInter; +} + +/** + *\ingroup gdcmHeader + *\brief gets the info from 0028,1053 : Rescale Slope + * @return Rescale Slope + */ + float gdcmHeader::GetRescaleSlope() { + float resSlope = 1.; + std::string StrRescSlope = GetEntryByNumber(0x0028,0x1053); //0028 1053 DS IMG Rescale Slope + if (StrRescSlope != GDCM_UNFOUND) { + if( sscanf( StrRescSlope.c_str(), "%f", &resSlope) != 1) { + dbg.Verbose(0, "gdcmHeader::GetRescaleSlope: Rescale Slope is empty"); + // bug in the element 0x0028,0x1053 + } + } + return resSlope; +} + +/** + * \ingroup gdcmHeader + * \brief This function is intended to user who doesn't want + * to have to manage a LUT and expects to get an RBG Pixel image + * (or a monochrome one ...) + * \warning to be used with GetImagePixels() + * @return 1 if Gray level, 3 if Color (RGB, YBR or PALETTE COLOR) + */ +int gdcmHeader::GetNumberOfScalarComponents() { + if (GetSamplesPerPixel() ==3) + return 3; + + // 0028 0100 US IMG Bits Allocated + // (in order no to be messed up by old RGB images) + if (gdcmHeader::GetEntryByNumber(0x0028,0x0100) == "24") + return 3; + + std::string PhotometricInterpretation = + gdcmHeader::GetEntryByNumber(0x0028,0x0004); + + if ( ( PhotometricInterpretation == "PALETTE COLOR ") ) { + if (HasLUT()) // PALETTE COLOR is NOT enough + return 3; + else + return 1; + } + + //beware of trailing space at end of string + if (PhotometricInterpretation.find(GDCM_UNFOUND) < + PhotometricInterpretation.length() || + PhotometricInterpretation.find("MONOCHROME1") < + PhotometricInterpretation.length() || + PhotometricInterpretation.find("MONOCHROME2") < + PhotometricInterpretation.length() ) + return 1; + else + // we assume that *all* kinds of YBR are dealt with + return 3; +} + +/** + * \ingroup gdcmHeader + * \brief This function is intended to user that DOESN'T want + * to get RGB pixels image when it's stored as a PALETTE COLOR image + * - the (vtk) user is supposed to know how deal with LUTs - + * \warning to be used with GetImagePixelsRaw() + * @return 1 if Gray level, 3 if Color (RGB or YBR - NOT 'PALETTE COLOR' -) + */ +int gdcmHeader::GetNumberOfScalarComponentsRaw() { + + // 0028 0100 US IMG Bits Allocated + // (in order no to be messed up by old RGB images) + if (gdcmHeader::GetEntryByNumber(0x0028,0x0100) == "24") + return 3; + + // we assume that *all* kinds of YBR are dealt with + return GetSamplesPerPixel(); +} + +/** + *\ingroup gdcmHeader + *\brief gets the info from 0020,000d : Study Instance UID + *\todo ? : return the ACR-NEMA element value if DICOM one is not found + * @return Study Instance UID + */ +//std::string gdcmHeader::GetStudyUID(){ +// return GetEntryByNumber(0x0020,0x000d); //0020 000d UI REL Study Instance UID +//} + +/** + *\ingroup gdcmHeader + *\brief gets the info from 0020,000e : Series Instance UID + *\todo ? : return the ACR-NEMA element value if DICOM one is not found + * @return Series Instance UID + */ +//std::string gdcmHeader::GetSeriesUID(){ +// return GetEntryByNumber(0x0020,0x000e); //0020 000e UI REL Series Instance UID +//} + +/** + *\ingroup gdcmHeader + *\brief gets the info from 0008,0016 : SOP Class UID + *\todo ? : return the ACR-NEMA element value if DICOM one is not found + * @return SOP Class UID + */ +//std::string gdcmHeader::GetClassUID(){ +// return GetEntryByNumber(0x0008,0x0016); //0008 0016 UI ID SOP Class UID +//} + +/** + *\brief gets the info from 0008,0018 : SOP Instance UID + *\todo ? : return the ACR-NEMA element value if DICOM one is not found + * @return SOP Instance UID + */ +//std::string gdcmHeader::GetInstanceUID(){ +// return GetEntryByNumber(0x0008,0x0018); //0008 0018 UI ID SOP Instance UID +//} +// +// -------------- Remember ! ---------------------------------- // // Image Position Patient (0020,0032): // If not found (ACR_NEMA) we try Image Position (0020,0030) @@ -1910,29 +395,32 @@ float gdcmHeader::GetZSpacing(void) { // or Location (0020,0050) // as the Z coordinate, // 0. for all the coordinates if nothing is found -// TODO : find a way to inform the caller nothing was found -// TODO : How to tell the caller a wrong number of values was found? +// \todo find a way to inform the caller nothing was found +// \todo How to tell the caller a wrong number of values was found? +// +// --------------------------------------------------------------- +// /** - * \ingroup gdcmHeader * \brief gets the info from 0020,0032 : Image Position Patient - *\ else from 0020,0030 : Image Position (RET) - *\ else 0. - * @return up-left image corner position + * else from 0020,0030 : Image Position (RET) + * else 0. + * @return up-left image corner X position */ -float gdcmHeader::GetXImagePosition(void) { + +float gdcmHeader::GetXOrigin() { float xImPos, yImPos, zImPos; - string StrImPos = GetPubElValByNumber(0x0020,0x0032); + std::string StrImPos = GetEntryByNumber(0x0020,0x0032); - if (StrImPos == "gdcm::Unfound") { + if (StrImPos == GDCM_UNFOUND) { dbg.Verbose(0, "gdcmHeader::GetXImagePosition: unfound Image Position Patient (0020,0032)"); - StrImPos = GetPubElValByNumber(0x0020,0x0030); // For ACR-NEMA images - if (StrImPos == "gdcm::Unfound") { + StrImPos = GetEntryByNumber(0x0020,0x0030); // For ACR-NEMA images + if (StrImPos == GDCM_UNFOUND) { dbg.Verbose(0, "gdcmHeader::GetXImagePosition: unfound Image Position (RET) (0020,0030)"); - // How to tell the caller nothing was found ? + /// \todo How to tell the caller nothing was found ? + return 0.; } - return 0.; } if( sscanf( StrImPos.c_str(), "%f\\%f\\%f", &xImPos, &yImPos, &zImPos) != 3) return 0.; @@ -1940,23 +428,23 @@ float gdcmHeader::GetXImagePosition(void) { } /** - * \ingroup gdcmHeader * \brief gets the info from 0020,0032 : Image Position Patient - * \ else from 0020,0030 : Image Position (RET) - * \ else 0. - * @return up-left image corner position + * else from 0020,0030 : Image Position (RET) + * else 0. + * @return up-left image corner Y position */ -float gdcmHeader::GetYImagePosition(void) { +float gdcmHeader::GetYOrigin() { float xImPos, yImPos, zImPos; - string StrImPos = GetPubElValByNumber(0x0020,0x0032); + std::string StrImPos = GetEntryByNumber(0x0020,0x0032); - if (StrImPos == "gdcm::Unfound") { + if (StrImPos == GDCM_UNFOUND) { dbg.Verbose(0, "gdcmHeader::GetYImagePosition: unfound Image Position Patient (0020,0032)"); - StrImPos = GetPubElValByNumber(0x0020,0x0030); // For ACR-NEMA images - if (StrImPos == "gdcm::Unfound") { + StrImPos = GetEntryByNumber(0x0020,0x0030); // For ACR-NEMA images + if (StrImPos == GDCM_UNFOUND) { dbg.Verbose(0, "gdcmHeader::GetYImagePosition: unfound Image Position (RET) (0020,0030)"); + /// \todo How to tell the caller nothing was found ? + return 0.; } - return 0.; } if( sscanf( StrImPos.c_str(), "%f\\%f\\%f", &xImPos, &yImPos, &zImPos) != 3) return 0.; @@ -1964,18 +452,17 @@ float gdcmHeader::GetYImagePosition(void) { } /** - * \ingroup gdcmHeader * \brief gets the info from 0020,0032 : Image Position Patient * \ else from 0020,0030 : Image Position (RET) * \ else from 0020,1041 : Slice Location * \ else from 0020,0050 : Location * \ else 0. - * @return up-left image corner position + * @return up-left image corner Z position */ -float gdcmHeader::GetZImagePosition(void) { +float gdcmHeader::GetZOrigin() { float xImPos, yImPos, zImPos; - string StrImPos = GetPubElValByNumber(0x0020,0x0032); - if (StrImPos != "gdcm::Unfound") { + std::string StrImPos = GetEntryByNumber(0x0020,0x0032); + if (StrImPos != GDCM_UNFOUND) { if( sscanf( StrImPos.c_str(), "%f\\%f\\%f", &xImPos, &yImPos, &zImPos) != 3) { dbg.Verbose(0, "gdcmHeader::GetZImagePosition: wrong Image Position Patient (0020,0032)"); return 0.; // bug in the element 0x0020,0x0032 @@ -1983,8 +470,8 @@ float gdcmHeader::GetZImagePosition(void) { return zImPos; } } - StrImPos = GetPubElValByNumber(0x0020,0x0030); // For ACR-NEMA images - if (StrImPos != "gdcm::Unfound") { + StrImPos = GetEntryByNumber(0x0020,0x0030); // For ACR-NEMA images + if (StrImPos != GDCM_UNFOUND) { if( sscanf( StrImPos.c_str(), "%f\\%f\\%f", &xImPos, &yImPos, &zImPos) != 3) { dbg.Verbose(0, "gdcmHeader::GetZImagePosition: wrong Image Position (RET) (0020,0030)"); return 0.; // bug in the element 0x0020,0x0032 @@ -1992,8 +479,8 @@ float gdcmHeader::GetZImagePosition(void) { return zImPos; } } - string StrSliceLocation = GetPubElValByNumber(0x0020,0x1041);// for *very* old ACR-NEMA images - if (StrSliceLocation != "gdcm::Unfound") { + std::string StrSliceLocation = GetEntryByNumber(0x0020,0x1041);// for *very* old ACR-NEMA images + if (StrSliceLocation != GDCM_UNFOUND) { if( sscanf( StrSliceLocation.c_str(), "%f", &zImPos) !=1) { dbg.Verbose(0, "gdcmHeader::GetZImagePosition: wrong Slice Location (0020,1041)"); return 0.; // bug in the element 0x0020,0x1041 @@ -2002,8 +489,8 @@ float gdcmHeader::GetZImagePosition(void) { } } dbg.Verbose(0, "gdcmHeader::GetZImagePosition: unfound Slice Location (0020,1041)"); - string StrLocation = GetPubElValByNumber(0x0020,0x0050); - if (StrLocation != "gdcm::Unfound") { + std::string StrLocation = GetEntryByNumber(0x0020,0x0050); + if (StrLocation != GDCM_UNFOUND) { if( sscanf( StrLocation.c_str(), "%f", &zImPos) !=1) { dbg.Verbose(0, "gdcmHeader::GetZImagePosition: wrong Location (0020,0050)"); return 0.; // bug in the element 0x0020,0x0050 @@ -2015,5 +502,604 @@ float gdcmHeader::GetZImagePosition(void) { return 0.; // Hopeless } +/** + * \brief gets the info from 0020,0013 : Image Number + * \ else 0. + * @return image number + */ +int gdcmHeader::GetImageNumber() { + // The function i atoi() takes the address of an area of memory as + // parameter and converts the string stored at that location to an integer + // using the external decimal to internal binary conversion rules. This may + // be preferable to sscanf() since atoi() is a much smaller, simpler and + // faster function. sscanf() can do all possible conversions whereas + // atoi() can only do single decimal integer conversions. + std::string StrImNumber = GetEntryByNumber(0x0020,0x0013); //0020 0013 IS REL Image Number + if (StrImNumber != GDCM_UNFOUND) { + return atoi( StrImNumber.c_str() ); + } + return 0; //Hopeless +} + +/** + * \brief gets the info from 0008,0060 : Modality + * @return Modality Type + */ +ModalityType gdcmHeader::GetModality() { + // 0008 0060 CS ID Modality + std::string StrModality = GetEntryByNumber(0x0008,0x0060); + if (StrModality != GDCM_UNFOUND) { + if ( StrModality.find("AU") < StrModality.length()) return AU; + else if ( StrModality.find("AS") < StrModality.length()) return AS; + else if ( StrModality.find("BI") < StrModality.length()) return BI; + else if ( StrModality.find("CF") < StrModality.length()) return CF; + else if ( StrModality.find("CP") < StrModality.length()) return CP; + else if ( StrModality.find("CR") < StrModality.length()) return CR; + else if ( StrModality.find("CT") < StrModality.length()) return CT; + else if ( StrModality.find("CS") < StrModality.length()) return CS; + else if ( StrModality.find("DD") < StrModality.length()) return DD; + else if ( StrModality.find("DF") < StrModality.length()) return DF; + else if ( StrModality.find("DG") < StrModality.length()) return DG; + else if ( StrModality.find("DM") < StrModality.length()) return DM; + else if ( StrModality.find("DS") < StrModality.length()) return DS; + else if ( StrModality.find("DX") < StrModality.length()) return DX; + else if ( StrModality.find("ECG") < StrModality.length()) return ECG; + else if ( StrModality.find("EPS") < StrModality.length()) return EPS; + else if ( StrModality.find("FA") < StrModality.length()) return FA; + else if ( StrModality.find("FS") < StrModality.length()) return FS; + else if ( StrModality.find("HC") < StrModality.length()) return HC; + else if ( StrModality.find("HD") < StrModality.length()) return HD; + else if ( StrModality.find("LP") < StrModality.length()) return LP; + else if ( StrModality.find("LS") < StrModality.length()) return LS; + else if ( StrModality.find("MA") < StrModality.length()) return MA; + else if ( StrModality.find("MR") < StrModality.length()) return MR; + else if ( StrModality.find("NM") < StrModality.length()) return NM; + else if ( StrModality.find("OT") < StrModality.length()) return OT; + else if ( StrModality.find("PT") < StrModality.length()) return PT; + else if ( StrModality.find("RF") < StrModality.length()) return RF; + else if ( StrModality.find("RG") < StrModality.length()) return RG; + else if ( StrModality.find("RTDOSE") < StrModality.length()) return RTDOSE; + else if ( StrModality.find("RTIMAGE") < StrModality.length()) return RTIMAGE; + else if ( StrModality.find("RTPLAN") < StrModality.length()) return RTPLAN; + else if ( StrModality.find("RTSTRUCT")< StrModality.length()) return RTSTRUCT; + else if ( StrModality.find("SM") < StrModality.length()) return SM; + else if ( StrModality.find("ST") < StrModality.length()) return ST; + else if ( StrModality.find("TG") < StrModality.length()) return TG; + else if ( StrModality.find("US") < StrModality.length()) return US; + else if ( StrModality.find("VF") < StrModality.length()) return VF; + else if ( StrModality.find("XA") < StrModality.length()) return XA; + else if ( StrModality.find("XC") < StrModality.length()) return XC; + + else + { + /// \todo throw error return value ??? + /// specified <> unknow in our database + return Unknow; + } + } + return Unknow; +} + +/** + * \ingroup gdcmHeader + * \brief Retrieve the number of Bits Stored (actually used) + * (as opposite to number of Bits Allocated) + * @return The encountered number of Bits Stored, 0 by default. + * 0 means the file is NOT USABLE. The caller has to check it ! + */ +int gdcmHeader::GetBitsStored() { + std::string StrSize = GetEntryByNumber(0x0028,0x0101); + if (StrSize == GDCM_UNFOUND) + return 0; // It's supposed to be mandatory + // the caller will have to check + return atoi(StrSize.c_str()); +} + +/** + * \ingroup gdcmHeader + * \brief Retrieve the number of Bits Allocated + * (8, 12 -compacted ACR-NEMA files, 16, ...) + * @return The encountered number of Bits Allocated, 0 by default. + * 0 means the file is NOT USABLE. The caller has to check it ! + */ +int gdcmHeader::GetBitsAllocated() { + std::string StrSize = GetEntryByNumber(0x0028,0x0100); + if (StrSize == GDCM_UNFOUND) + return 0; // It's supposed to be mandatory + // the caller will have to check + return atoi(StrSize.c_str()); +} + +/** + * \ingroup gdcmHeader + * \brief Retrieve the number of Samples Per Pixel + * (1 : gray level, 3 : RGB -1 or 3 Planes-) + * @return The encountered number of Samples Per Pixel, 1 by default. + * (Gray level Pixels) + */ +int gdcmHeader::GetSamplesPerPixel() { + std::string StrSize = GetEntryByNumber(0x0028,0x0002); + if (StrSize == GDCM_UNFOUND) + return 1; // Well, it's supposed to be mandatory ... + // but sometimes it's missing : *we* assume Gray pixels + return atoi(StrSize.c_str()); +} + +/** + * \ingroup gdcmHeader + * \brief Retrieve the Planar Configuration for RGB images + * (0 : RGB Pixels , 1 : R Plane + G Plane + B Plane) + * @return The encountered Planar Configuration, 0 by default. + */ +int gdcmHeader::GetPlanarConfiguration() { + std::string StrSize = GetEntryByNumber(0x0028,0x0006); + if (StrSize == GDCM_UNFOUND) + return 0; + return atoi(StrSize.c_str()); +} + +/** + * \ingroup gdcmHeader + * \brief Return the size (in bytes) of a single pixel of data. + * @return The size in bytes of a single pixel of data; 0 by default + * 0 means the file is NOT USABLE; the caller will have to check + */ +int gdcmHeader::GetPixelSize() { + // 0028 0100 US IMG Bits Allocated + // (in order no to be messed up by old RGB images) +// if (gdcmHeader::GetEntryByNumber(0x0028,0x0100) == "24") +// return 3; + + std::string PixelType = GetPixelType(); + if (PixelType == "8U" || PixelType == "8S") + return 1; + if (PixelType == "16U" || PixelType == "16S") + return 2; + if (PixelType == "32U" || PixelType == "32S") + return 4; + if (PixelType == "FD") + return 8; + dbg.Verbose(0, "gdcmHeader::GetPixelSize: Unknown pixel type"); + return 0; +} + +/** + * \ingroup gdcmHeader + * \brief Build the Pixel Type of the image. + * Possible values are: + * - 8U unsigned 8 bit, + * - 8S signed 8 bit, + * - 16U unsigned 16 bit, + * - 16S signed 16 bit, + * - 32U unsigned 32 bit, + * - 32S signed 32 bit, + * - FD floating double 64 bits (Not kosher DICOM, but so usefull!) + * \warning 12 bit images appear as 16 bit. + * 24 bit images appear as 8 bit + * @return 0S if nothing found. NOT USABLE file. The caller has to check + */ +std::string gdcmHeader::GetPixelType() { + std::string BitsAlloc = GetEntryByNumber(0x0028, 0x0100); // Bits Allocated + if (BitsAlloc == GDCM_UNFOUND) { + dbg.Verbose(0, "gdcmHeader::GetPixelType: unfound Bits Allocated"); + BitsAlloc = std::string("16"); + } + if (BitsAlloc == "64") // ) + return ("FD"); + if (BitsAlloc == "12") // It will be unpacked + BitsAlloc = std::string("16"); + else if (BitsAlloc == "24") // (in order no to be messed up + BitsAlloc = std::string("8"); // by old RGB images) + + std::string Signed = GetEntryByNumber(0x0028, 0x0103); // "Pixel Representation" + if (Signed == GDCM_UNFOUND) { + dbg.Verbose(0, "gdcmHeader::GetPixelType: unfound Pixel Representation"); + BitsAlloc = std::string("0"); + } + if (Signed == "0") + Signed = std::string("U"); + else + Signed = std::string("S"); + + return( BitsAlloc + Signed); +} + + +/** + * \ingroup gdcmHeader + * \brief Recover the offset (from the beginning of the file) + * of *image* pixels (not *icone image* pixels, if any !) + * @return Pixel Offset + */ +size_t gdcmHeader::GetPixelOffset() { + + gdcmDocEntry* PixelElement = GetDocEntryByNumber(GrPixel,NumPixel); + + if (PixelElement) { + return PixelElement->GetOffset(); + } else { +#ifdef GDCM_DEBUG + std::cout << "Big trouble : Pixel Element (" + << std::hex << GrPixel<<","<< NumPixel<< ") NOT found" + << std::endl; +#endif //GDCM_DEBUG + return 0; + } +} +// TODO : unify those two (previous one and next one) +/** + * \ingroup gdcmHeader + * \brief Recover the pixel area length (in Bytes) + * @return Pixel Element Length, as stored in the header + * (NOT the memory space necessary to hold the Pixels + * -in case of embeded compressed image-) + * 0 : NOT USABLE file. The caller has to check. + */ +size_t gdcmHeader::GetPixelAreaLength() { + + gdcmDocEntry* PixelElement = GetDocEntryByNumber(GrPixel,NumPixel); + + if (PixelElement) { + return PixelElement->GetLength(); + } else { +#ifdef GDCM_DEBUG + std::cout << "Big trouble : Pixel Element (" + << std::hex << GrPixel<<","<< NumPixel<< ") NOT found" + << std::endl; +#endif //GDCM_DEBUG + return 0; + } +} + +/** + * \ingroup gdcmHeader + * \brief tells us if LUT are used + * \warning Right now, 'Segmented xxx Palette Color Lookup Table Data' + * are NOT considered as LUT, since nobody knows + * how to deal with them + * Please warn me if you know sbdy that *does* know ... jprx + * @return true if LUT Descriptors and LUT Tables were found + */ +bool gdcmHeader::HasLUT() { + + // Check the presence of the LUT Descriptors, and LUT Tables + // LutDescriptorRed + if ( !GetDocEntryByNumber(0x0028,0x1101) ) + return false; + // LutDescriptorGreen + if ( !GetDocEntryByNumber(0x0028,0x1102) ) + return false; + // LutDescriptorBlue + if ( !GetDocEntryByNumber(0x0028,0x1103) ) + return false; + // Red Palette Color Lookup Table Data + if ( !GetDocEntryByNumber(0x0028,0x1201) ) + return false; + // Green Palette Color Lookup Table Data + if ( !GetDocEntryByNumber(0x0028,0x1202) ) + return false; + // Blue Palette Color Lookup Table Data + if ( !GetDocEntryByNumber(0x0028,0x1203) ) + return false; + // FIXME : (0x0028,0x3006) : LUT Data (CTX dependent) + // NOT taken into account, but we don't know how to use it ... + return true; +} + +/** + * \ingroup gdcmHeader + * \brief gets the info from 0028,1101 : Lookup Table Desc-Red + * else 0 + * @return Lookup Table number of Bits , 0 by default + * when (0028,0004),Photometric Interpretation = [PALETTE COLOR ] + * @ return bit number of each LUT item + */ +int gdcmHeader::GetLUTNbits() { + std::vector tokens; + //int LutLength; + //int LutDepth; + int LutNbits; + //Just hope Lookup Table Desc-Red = Lookup Table Desc-Red = Lookup Table Desc-Blue + // Consistency already checked in GetLUTLength + std::string LutDescription = GetEntryByNumber(0x0028,0x1101); + if (LutDescription == GDCM_UNFOUND) + return 0; + tokens.erase(tokens.begin(),tokens.end()); // clean any previous value + Tokenize (LutDescription, tokens, "\\"); + //LutLength=atoi(tokens[0].c_str()); + //LutDepth=atoi(tokens[1].c_str()); + LutNbits=atoi(tokens[2].c_str()); + tokens.clear(); + return LutNbits; +} + +/** + * \ingroup gdcmHeader + * \brief builts Red/Green/Blue/Alpha LUT from Header + * when (0028,0004),Photometric Interpretation = [PALETTE COLOR ] + * and (0028,1101),(0028,1102),(0028,1102) + * - xxx Palette Color Lookup Table Descriptor - are found + * and (0028,1201),(0028,1202),(0028,1202) + * - xxx Palette Color Lookup Table Data - are found + * \warning does NOT deal with : + * 0028 1100 Gray Lookup Table Descriptor (Retired) + * 0028 1221 Segmented Red Palette Color Lookup Table Data + * 0028 1222 Segmented Green Palette Color Lookup Table Data + * 0028 1223 Segmented Blue Palette Color Lookup Table Data + * no known Dicom reader deals with them :-( + * @return a RGBA Lookup Table + */ +unsigned char * gdcmHeader::GetLUTRGBA() { +// Not so easy : see +// http://www.barre.nom.fr/medical/dicom2/limitations.html#Color%20Lookup%20Tables + +// if Photometric Interpretation # PALETTE COLOR, no LUT to be done + if (GetEntryByNumber(0x0028,0x0004) != "PALETTE COLOR ") { + return NULL; + } + int lengthR, debR, nbitsR; + int lengthG, debG, nbitsG; + int lengthB, debB, nbitsB; + +// Get info from Lut Descriptors +// (the 3 LUT descriptors may be different) + std::string LutDescriptionR = GetEntryByNumber(0x0028,0x1101); + if (LutDescriptionR == GDCM_UNFOUND) + return NULL; + std::string LutDescriptionG = GetEntryByNumber(0x0028,0x1102); + if (LutDescriptionG == GDCM_UNFOUND) + return NULL; + std::string LutDescriptionB = GetEntryByNumber(0x0028,0x1103); + if (LutDescriptionB == GDCM_UNFOUND) + return NULL; + + std::vector tokens; + + tokens.erase(tokens.begin(),tokens.end()); // clean any previous value + Tokenize (LutDescriptionR, tokens, "\\"); + lengthR=atoi(tokens[0].c_str()); // Red LUT length in Bytes + debR =atoi(tokens[1].c_str()); // subscript of the first Lut Value + nbitsR =atoi(tokens[2].c_str()); // Lut item size (in Bits) + tokens.clear(); + + tokens.erase(tokens.begin(),tokens.end()); // clean any previous value + Tokenize (LutDescriptionG, tokens, "\\"); + lengthG=atoi(tokens[0].c_str()); // Green LUT length in Bytes + debG =atoi(tokens[1].c_str()); // subscript of the first Lut Value + nbitsG =atoi(tokens[2].c_str()); // Lut item size (in Bits) + tokens.clear(); + + tokens.erase(tokens.begin(),tokens.end()); // clean any previous value + Tokenize (LutDescriptionB, tokens, "\\"); + lengthB=atoi(tokens[0].c_str()); // Blue LUT length in Bytes + debB =atoi(tokens[1].c_str()); // subscript of the first Lut Value + nbitsB =atoi(tokens[2].c_str()); // Lut item size (in Bits) + tokens.clear(); + + // Load LUTs into memory, (as they were stored on disk) + unsigned char *lutR = (unsigned char *) + GetEntryVoidAreaByNumber(0x0028,0x1201); + unsigned char *lutG = (unsigned char *) + GetEntryVoidAreaByNumber(0x0028,0x1202); + unsigned char *lutB = (unsigned char *) + GetEntryVoidAreaByNumber(0x0028,0x1203); + + if (!lutR || !lutG || !lutB ) { + return NULL; + } + // forge the 4 * 8 Bits Red/Green/Blue/Alpha LUT + + unsigned char *LUTRGBA = new unsigned char[1024]; // 256 * 4 (R, G, B, Alpha) + if (!LUTRGBA) { + return NULL; + } + memset(LUTRGBA, 0, 1024); + // Bits Allocated + int nb; + std::string str_nb = GetEntryByNumber(0x0028,0x0100); + if (str_nb == GDCM_UNFOUND ) { + nb = 16; + } else { + nb = atoi(str_nb.c_str() ); + } + int mult; + + if (nbitsR==16 && nb==8) // when LUT item size is different than pixel size + mult=2; // high byte must be = low byte + else // See PS 3.3-2003 C.11.1.1.2 p 619 + mult=1; + + // if we get a black image, let's just remove the '+1' + // from 'i*mult+1' and check again + // if it works, we shall have to check the 3 Palettes + // to see which byte is ==0 (first one, or second one) + // and fix the code + // We give up the checking to avoid some (useless ?)overhead + // (optimistic asumption) + unsigned char *a; + int i; + + a = LUTRGBA+0; + for(i=0;iGetValue(TransfertSyntax); + //delete ts; /// \todo Seg Fault when deleted ?! + return tsName; +} + +/** + * \brief Sets the Pixel Area size in the Header + * --> not-for-rats function + * @param ImageDataSize new Pixel Area Size + * warning : nothing else is checked + */ +void gdcmHeader::SetImageDataSize(size_t ImageDataSize) { + std::string content1; + char car[20]; + + sprintf(car,"%d",ImageDataSize); + + gdcmDocEntry *a = GetDocEntryByNumber(GrPixel, NumPixel); + a->SetLength(ImageDataSize); + + ImageDataSize+=8; + sprintf(car,"%d",ImageDataSize); + content1=car; + SetEntryByNumber(content1, GrPixel, NumPixel); +} + +//----------------------------------------------------------------------------- +// Protected + +/** + * \brief anonymize a Header (removes Patient's personal info) + * (read the code to see which ones ...) + */ +bool gdcmHeader::AnonymizeHeader() { + + gdcmDocEntry *patientNameHE = GetDocEntryByNumber (0x0010, 0x0010); + + ReplaceIfExistByNumber (" ",0x0010, 0x2154); // Telephone + ReplaceIfExistByNumber (" ",0x0010, 0x1040); // Adress + ReplaceIfExistByNumber (" ",0x0010, 0x0020); // Patient ID + + if (patientNameHE) { + std::string studyInstanceUID = GetEntryByNumber (0x0020, 0x000d); + if (studyInstanceUID !=GDCM_UNFOUND) + ReplaceOrCreateByNumber(studyInstanceUID, 0x0010, 0x0010); + else + ReplaceOrCreateByNumber(std::string("anonymised"), 0x0010, 0x0010); + } + + // Just for fun :-( + // (if any) remove or replace all the stuff that contains a Date + +//0008 0012 DA ID Instance Creation Date +//0008 0020 DA ID Study Date +//0008 0021 DA ID Series Date +//0008 0022 DA ID Acquisition Date +//0008 0023 DA ID Content Date +//0008 0024 DA ID Overlay Date +//0008 0025 DA ID Curve Date +//0008 002a DT ID Acquisition Datetime +//0018 9074 DT ACQ Frame Acquisition Datetime +//0018 9151 DT ACQ Frame Reference Datetime +//0018 a002 DT ACQ Contribution Date Time +//0020 3403 SH REL Modified Image Date (RET) +//0032 0032 DA SDY Study Verified Date +//0032 0034 DA SDY Study Read Date +//0032 1000 DA SDY Scheduled Study Start Date +//0032 1010 DA SDY Scheduled Study Stop Date +//0032 1040 DA SDY Study Arrival Date +//0032 1050 DA SDY Study Completion Date +//0038 001a DA VIS Scheduled Admission Date +//0038 001c DA VIS Scheduled Discharge Date +//0038 0020 DA VIS Admitting Date +//0038 0030 DA VIS Discharge Date +//0040 0002 DA PRC Scheduled Procedure Step Start Date +//0040 0004 DA PRC Scheduled Procedure Step End Date +//0040 0244 DA PRC Performed Procedure Step Start Date +//0040 0250 DA PRC Performed Procedure Step End Date +//0040 2004 DA PRC Issue Date of Imaging Service Request +//0040 4005 DT PRC Scheduled Procedure Step Start Date and Time +//0040 4011 DT PRC Expected Completion Date and Time +//0040 a030 DT PRC Verification Date Time +//0040 a032 DT PRC Observation Date Time +//0040 a120 DT PRC DateTime +//0040 a121 DA PRC Date +//0040 a13a DT PRC Referenced Datetime +//0070 0082 DA ??? Presentation Creation Date +//0100 0420 DT ??? SOP Autorization Date and Time +//0400 0105 DT ??? Digital Signature DateTime +//2100 0040 DA PJ Creation Date +//3006 0008 DA SSET Structure Set Date +//3008 0024 DA ??? Treatment Control Point Date +//3008 0054 DA ??? First Treatment Date +//3008 0056 DA ??? Most Recent Treatment Date +//3008 0162 DA ??? Safe Position Exit Date +//3008 0166 DA ??? Safe Position Return Date +//3008 0250 DA ??? Treatment Date +//300a 0006 DA RT RT Plan Date +//300a 022c DA RT Air Kerma Rate Reference Date +//300e 0004 DA RT Review Date + return true; +} + +/** + * \brief gets the info from 0020,0037 : Image Orientation Patient + * @param iop adress of the (6)float aray to receive values + * @return cosines of image orientation patient + */ +void gdcmHeader::GetImageOrientationPatient( float* iop ) { + + //iop is supposed to be float[6] + iop[0] = iop[1] = iop[2] = iop[3] = iop[4] = iop[5] = 0; + + // 0020 0037 DS REL Image Orientation (Patient) + std::string StrImOriPat = GetEntryByNumber(0x0020,0x0037); + if (StrImOriPat != GDCM_UNFOUND) { + if( sscanf( StrImOriPat.c_str(), "%f\\%f\\%f\\%f\\%f\\%f", + &iop[0], &iop[1], &iop[2], &iop[3], &iop[4], &iop[5]) != 6) { + dbg.Verbose(0, "gdcmHeader::GetImageOrientationPatient: wrong Image Orientation Patient (0020,0037)"); + return ; // bug in the element 0x0020,0x0037 + } + else + return ; + } + + //For ACR-NEMA + // 0020 0035 DS REL Image Orientation (RET) + StrImOriPat = GetEntryByNumber(0x0020,0x0035); + if (StrImOriPat != GDCM_UNFOUND) { + if( sscanf( StrImOriPat.c_str(), "%f\\%f\\%f\\%f\\%f\\%f", + &iop[0], &iop[1], &iop[2], &iop[3], &iop[4], &iop[5]) != 6) { + dbg.Verbose(0, "gdcmHeader::GetImageOrientationPatient: wrong Image Orientation Patient (0020,0035)"); + return ; // bug in the element 0x0020,0x0035 + } + else + return ; + } +} +//----------------------------------------------------------------------------- +// Private +//-----------------------------------------------------------------------------