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/*
//
// Copyright 2004-2014 SRI International
//
// Copyright 1997-2009 Torsten Rohlfing
//
// This file is part of the Computational Morphometry Toolkit.
//
// http://www.nitrc.org/projects/cmtk/
//
// The Computational Morphometry Toolkit is free software: you can
// redistribute it and/or modify it under the terms of the GNU General Public
// License as published by the Free Software Foundation, either version 3 of
// the License, or (at your option) any later version.
//
// The Computational Morphometry Toolkit is distributed in the hope that it
// will be useful, but WITHOUT ANY WARRANTY; without even the implied
// warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
// GNU General Public License for more details.
//
// You should have received a copy of the GNU General Public License along
// with the Computational Morphometry Toolkit. If not, see
// <http://www.gnu.org/licenses/>.
//
// $Revision: 4497 $
//
// $LastChangedDate: 2012-08-24 13:46:21 -0700 (Fri, 24 Aug 2012) $
//
// $LastChangedBy: torstenrohlfing $
//
*/
#ifndef __cmtkImageFileDICOM_h_included_
#define __cmtkImageFileDICOM_h_included_
#include <cmtkconfig.h>
#include <System/cmtkSmartPtr.h>
#include <System/cmtkSmartConstPtr.h>
#include <Base/cmtkFixedVector.h>
#include <dcmtk/dcmdata/dctk.h>
#include <dcmtk/dcmimgle/didocu.h>
#define DCM_GE_EffectiveEchoSpacing DcmTagKey(0x0043,0x102c)
#define DCM_GE_RawDataType_ImageType DcmTagKey(0x0043,0x102f)
#define DCM_GE_AssetRFactors DcmTagKey(0x0043,0x1083)
#define DCM_GE_PulseSequenceName DcmTagKey(0x0019,0x109c)
#define DCM_GE_PulseSequenceDate DcmTagKey(0x0019,0x109d)
#define DCM_GE_InternalPulseSequenceName DcmTagKey(0x0019,0x109e)
#ifndef DCM_ManufacturerModelName
#define DCM_ManufacturerModelName DcmTagKey(0x0008,0x1090)
#endif
#ifndef DCM_PatientsName
#define DCM_PatientsName DCM_PatientName
#endif
#ifndef DCM_Siemens_MosaicRefAcqTimes
// Siemens tag for relative timing of all slices in a mosaic file
#define DCM_Siemens_MosaicRefAcqTimes DcmTagKey(0x0019,0x1029)
#endif
#include <string>
#include <map>
#include <memory>
namespace
cmtk
{
/** \addtogroup IO */
//@{
/// Class handling a single DICOM image file and its meta data.
class ImageFileDICOM
{
public:
/// This class.
typedef ImageFileDICOM Self;
/// Smart pointer to this class.
typedef SmartPointer<Self> SmartPtr;
/// Smart pointer to constant object of this class.
typedef SmartConstPointer<Self> SmartConstPtr;
/// File name.
std::string m_FileName;
/// File directory.
std::string m_FileDir;
/// Flag for multislice images
bool m_IsMultislice;
/// DICOM acquisition number.
Sint32 m_AcquisitionNumber;
/// DICOM image number (index in volume).
Sint32 m_InstanceNumber;
/// Flag for diffusion-weighted images.
bool m_IsDWI;
/// Dwell time for EPI
double m_DwellTime;
/** Sign for phase encode direction.
* This is "pos" for "positive" phase encoding, "neg" for "negative", or "unknown"
*/
std::string m_PhaseEncodeDirectionSign;
/// B value for DWI.
double m_BValue;
/// B vector for DWI.
cmtk::FixedVector<3,double> m_BVector;
/// Flag whether this image has a valid B vector (false for average DWI images).
bool m_HasBVector;
/// Raw data type string.
std::string m_RawDataType;
/// Slice time(s) for this file.
std::vector<double> m_SliceTimes;
/// Constructor.
ImageFileDICOM( const std::string& filename );
/// Determine whether two images match, i.e., belong to the same volume.
bool Match( const Self& other, const Types::Coordinate numericalTolerance = 0, /*!< Numerical comparison tolerance; values with absolute difference less than this threshold are considered equal. */
const bool disableCheckOrientation = false /*!< Flag for disabling the checking of image orientation vectors.*/,
const bool ignoreAcquisitionNumber = false /*!< When this flag is set, the AcquisitionNumber DICOM tag is ignore for matching images*/ ) const;
/// Test if this image matches at least one from a list of DICOM tag patterns.
bool MatchAnyPattern( const std::map<DcmTagKey,std::string>& patterns ) const;
/// Test if this image matches all from a list of DICOM tag patterns (or list is empty).
bool MatchAllPatterns( const std::map<DcmTagKey,std::string>& patterns ) const;
/// Compare order based on file name (for lexicographic sorting).
static bool lessFileName( const Self* lhs, const Self* rhs )
{
return lhs->m_FileName < rhs->m_FileName;
}
/// Compare order based on image instace (for sorting in acquisition order).
static bool lessInstanceNumber( const Self* lhs, const Self* rhs )
{
return lhs->m_InstanceNumber < rhs->m_InstanceNumber;
}
/// Print informatiomn about this object.
void Print() const;
/// Release memory allocated for complete DICOM document.
void ReleaseDocument()
{
this->m_Document = std::auto_ptr<DiDocument>( NULL );
}
/// Get tag value.
const std::string& GetTagValue( const DcmTagKey& tag /*!< Find value string for this tag in DICOM file */, const std::string& defaultString = "" /*!< Return this default value if tag does not exist */ ) const
{
std::map<DcmTagKey,std::string>::const_iterator it = this->m_TagToStringMap.find( tag );
if ( it != this->m_TagToStringMap.end() )
return it->second;
else
return defaultString;
}
private:
/// Pointer to DICOM dataset object
std::auto_ptr<DcmDataset> m_Dataset;
/// DICOM document object.
std::auto_ptr<DiDocument> m_Document;
/// Map DCMTK tags to their string values in this image file.
std::map<DcmTagKey,std::string> m_TagToStringMap;
/// Handle Siemens private tags.
void DoVendorTagsSiemens();
/// Handle GE private tags.
void DoVendorTagsGE();
/// Handle Philips private tags.
void DoVendorTagsPhilips();
};
//@}
} // namespace cmtk
#endif // #ifndef __cmtkImageFileDICOM_h_included_
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