view Core/DicomParsing/DcmtkTranscoder.cpp @ 3893:7a5fa8f307e9 transcoding

reorganization
author Sebastien Jodogne <s.jodogne@gmail.com>
date Wed, 06 May 2020 12:48:28 +0200
parents
children 8f7ad4989fec
line wrap: on
line source

/**
 * Orthanc - A Lightweight, RESTful DICOM Store
 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics
 * Department, University Hospital of Liege, Belgium
 * Copyright (C) 2017-2020 Osimis S.A., Belgium
 *
 * This program 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.
 *
 * In addition, as a special exception, the copyright holders of this
 * program give permission to link the code of its release with the
 * OpenSSL project's "OpenSSL" library (or with modified versions of it
 * that use the same license as the "OpenSSL" library), and distribute
 * the linked executables. You must obey the GNU General Public License
 * in all respects for all of the code used other than "OpenSSL". If you
 * modify file(s) with this exception, you may extend this exception to
 * your version of the file(s), but you are not obligated to do so. If
 * you do not wish to do so, delete this exception statement from your
 * version. If you delete this exception statement from all source files
 * in the program, then also delete it here.
 * 
 * This program 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 this program. If not, see <http://www.gnu.org/licenses/>.
 **/


#include "../PrecompiledHeaders.h"
#include "DcmtkTranscoder.h"


#if !defined(ORTHANC_ENABLE_DCMTK_JPEG)
#  error Macro ORTHANC_ENABLE_DCMTK_JPEG must be defined
#endif

#if !defined(ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS)
#  error Macro ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS must be defined
#endif


#include "FromDcmtkBridge.h"
#include "../OrthancException.h"

#include <dcmtk/dcmdata/dcdeftag.h>
#include <dcmtk/dcmjpeg/djrploss.h>  // for DJ_RPLossy
#include <dcmtk/dcmjpeg/djrplol.h>   // for DJ_RPLossless
#include <dcmtk/dcmjpls/djrparam.h>  // for DJLSRepresentationParameter


namespace Orthanc
{
  static uint16_t GetBitsStored(DcmDataset& dataset)
  {
    uint16_t bitsStored;
    if (dataset.findAndGetUint16(DCM_BitsStored, bitsStored).good())
    {
      return bitsStored;
    }
    else
    {
      throw OrthancException(ErrorCode_BadFileFormat,
                             "Missing \"Bits Stored\" tag in DICOM instance");
    }      
  }

  
  static std::string GetSopInstanceUid(DcmDataset& dataset)
  {
    const char* v = NULL;

    if (dataset.findAndGetString(DCM_SOPInstanceUID, v).good() &&
        v != NULL)
    {
      return std::string(v);
    }
    else
    {
      throw OrthancException(ErrorCode_BadFileFormat, "File without SOP instance UID");
    }
  }

  
  static void CheckSopInstanceUid(DcmFileFormat& dicom,
                                  const std::string& sopInstanceUid,
                                  bool mustEqual)
  {
    if (dicom.getDataset() == NULL)
    {
      throw OrthancException(ErrorCode_InternalError);
    }
      
    bool ok;
      
    if (mustEqual)
    {
      ok = (GetSopInstanceUid(*dicom.getDataset()) == sopInstanceUid);
    }
    else
    {
      ok = (GetSopInstanceUid(*dicom.getDataset()) != sopInstanceUid);
    }

    if (!ok)
    {
      throw OrthancException(ErrorCode_InternalError,
                             mustEqual ? "The SOP instance UID has changed unexpectedly during transcoding" :
                             "The SOP instance UID has not changed as expected during transcoding");
    }
  }
    

  void DcmtkTranscoder::SetLossyQuality(unsigned int quality)
  {
    if (quality <= 0 ||
        quality > 100)
    {
      throw OrthancException(ErrorCode_ParameterOutOfRange);
    }
    else
    {
      lossyQuality_ = quality;
    }
  }

    
  DcmFileFormat* DcmtkTranscoder::TranscodeToParsed(const void* buffer,
                                                    size_t size,
                                                    const std::set<DicomTransferSyntax>& allowedSyntaxes,
                                                    bool allowNewSopInstanceUid) 
  {
    std::unique_ptr<DcmFileFormat> dicom(FromDcmtkBridge::LoadFromMemoryBuffer(buffer, size));

    if (dicom.get() == NULL)
    {
      throw OrthancException(ErrorCode_InternalError);
    }

    if (InplaceTranscode(*dicom, allowedSyntaxes, allowNewSopInstanceUid))
    {
      return dicom.release();
    }
    else
    {
      return NULL;
    }
  }


  bool DcmtkTranscoder::InplaceTranscode(DcmFileFormat& dicom,
                                         const std::set<DicomTransferSyntax>& allowedSyntaxes,
                                         bool allowNewSopInstanceUid) 
  {
    if (dicom.getDataset() == NULL)
    {
      throw OrthancException(ErrorCode_InternalError);
    }

    DicomTransferSyntax syntax;
    if (!FromDcmtkBridge::LookupOrthancTransferSyntax(syntax, dicom))
    {
      throw OrthancException(ErrorCode_BadFileFormat,
                             "Cannot determine the transfer syntax");
    }

    const uint16_t bitsStored = GetBitsStored(*dicom.getDataset());
    std::string sourceSopInstanceUid = GetSopInstanceUid(*dicom.getDataset());

    if (allowedSyntaxes.find(syntax) != allowedSyntaxes.end())
    {
      // No transcoding is needed
      return true;
    }
      
    if (allowedSyntaxes.find(DicomTransferSyntax_LittleEndianImplicit) != allowedSyntaxes.end() &&
        FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_LittleEndianImplicit, NULL))
    {
      CheckSopInstanceUid(dicom, sourceSopInstanceUid, true);
      return true;
    }

    if (allowedSyntaxes.find(DicomTransferSyntax_LittleEndianExplicit) != allowedSyntaxes.end() &&
        FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_LittleEndianExplicit, NULL))
    {
      CheckSopInstanceUid(dicom, sourceSopInstanceUid, true);
      return true;
    }
      
    if (allowedSyntaxes.find(DicomTransferSyntax_BigEndianExplicit) != allowedSyntaxes.end() &&
        FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_BigEndianExplicit, NULL))
    {
      CheckSopInstanceUid(dicom, sourceSopInstanceUid, true);
      return true;
    }

    if (allowedSyntaxes.find(DicomTransferSyntax_DeflatedLittleEndianExplicit) != allowedSyntaxes.end() &&
        FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_DeflatedLittleEndianExplicit, NULL))
    {
      CheckSopInstanceUid(dicom, sourceSopInstanceUid, true);
      return true;
    }

#if ORTHANC_ENABLE_DCMTK_JPEG == 1
    if (allowedSyntaxes.find(DicomTransferSyntax_JPEGProcess1) != allowedSyntaxes.end() &&
        allowNewSopInstanceUid &&
        bitsStored == 8)
    {
      // Check out "dcmjpeg/apps/dcmcjpeg.cc"
      DJ_RPLossy parameters(lossyQuality_);
        
      if (FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_JPEGProcess1, &parameters))
      {
        CheckSopInstanceUid(dicom, sourceSopInstanceUid, false);
        return true;
      }
    }
#endif
      
#if ORTHANC_ENABLE_DCMTK_JPEG == 1
    if (allowedSyntaxes.find(DicomTransferSyntax_JPEGProcess2_4) != allowedSyntaxes.end() &&
        allowNewSopInstanceUid &&
        bitsStored <= 12)
    {
      // Check out "dcmjpeg/apps/dcmcjpeg.cc"
      DJ_RPLossy parameters(lossyQuality_);
      if (FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_JPEGProcess2_4, &parameters))
      {
        CheckSopInstanceUid(dicom, sourceSopInstanceUid, false);
        return true;
      }
    }
#endif
      
#if ORTHANC_ENABLE_DCMTK_JPEG == 1
    if (allowedSyntaxes.find(DicomTransferSyntax_JPEGProcess14SV1) != allowedSyntaxes.end())
    {
      // Check out "dcmjpeg/apps/dcmcjpeg.cc"
      DJ_RPLossless parameters(6 /* opt_selection_value */,
                               0 /* opt_point_transform */);
      if (FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_JPEGProcess14SV1, &parameters))
      {
        CheckSopInstanceUid(dicom, sourceSopInstanceUid, true);
        return true;
      }
    }
#endif
      
#if ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS == 1
    if (allowedSyntaxes.find(DicomTransferSyntax_JPEGLSLossless) != allowedSyntaxes.end())
    {
      // Check out "dcmjpls/apps/dcmcjpls.cc"
      DJLSRepresentationParameter parameters(2 /* opt_nearlossless_deviation */,
                                             OFTrue /* opt_useLosslessProcess */);

      /**
       * WARNING: This call results in a segmentation fault if using
       * the DCMTK package 3.6.2 from Ubuntu 18.04.
       **/              
      if (FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_JPEGLSLossless, &parameters))
      {
        CheckSopInstanceUid(dicom, sourceSopInstanceUid, true);
        return true;
      }
    }
#endif
      
#if ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS == 1
    if (allowNewSopInstanceUid &&
        allowedSyntaxes.find(DicomTransferSyntax_JPEGLSLossy) != allowedSyntaxes.end())
    {
      // Check out "dcmjpls/apps/dcmcjpls.cc"
      DJLSRepresentationParameter parameters(2 /* opt_nearlossless_deviation */,
                                             OFFalse /* opt_useLosslessProcess */);

      /**
       * WARNING: This call results in a segmentation fault if using
       * the DCMTK package 3.6.2 from Ubuntu 18.04.
       **/              
      if (FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_JPEGLSLossy, &parameters))
      {
        CheckSopInstanceUid(dicom, sourceSopInstanceUid, false);
        return true;
      }
    }
#endif

    return false;
  }

    
  bool DcmtkTranscoder::TranscodeToBuffer(std::string& target,
                                          const void* buffer,
                                          size_t size,
                                          const std::set<DicomTransferSyntax>& allowedSyntaxes,
                                          bool allowNewSopInstanceUid) 
  {
    std::unique_ptr<DcmFileFormat> transcoded(
      TranscodeToParsed(buffer, size, allowedSyntaxes, allowNewSopInstanceUid));

    if (transcoded.get() == NULL)
    {
      return false;
    }
    else
    {
      if (transcoded->getDataset() == NULL)
      {
        throw OrthancException(ErrorCode_InternalError);
      }          
        
      FromDcmtkBridge::SaveToMemoryBuffer(target, *transcoded->getDataset());
      return true;
    }
  }
}