--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/OrthancStone/Sources/Toolbox/ImageToolbox.cpp	Tue Jul 07 16:21:02 2020 +0200
@@ -0,0 +1,337 @@
+/**
+ * Stone of Orthanc
+ * 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 Affero General Public License
+ * as published by the Free Software Foundation, either version 3 of
+ * the License, or (at your option) any later version.
+ *
+ * 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
+ * Affero General Public License for more details.
+ * 
+ * You should have received a copy of the GNU Affero General Public License
+ * along with this program. If not, see <http://www.gnu.org/licenses/>.
+ **/
+
+#include "../OrthancStone.h"
+#include "ImageToolbox.h"
+
+#include "../StoneException.h"
+
+#include <Images/ImageProcessing.h>
+#include <Images/PixelTraits.h>
+
+#include <Logging.h>
+#include <OrthancException.h>
+
+#include <boost/static_assert.hpp>
+#include <boost/type_traits.hpp>
+
+#include <vector>
+
+#if !defined(ORTHANC_ENABLE_DCMTK)
+#  error ORTHANC_ENABLE_DCMTK is not defined
+#endif
+
+#if !defined(ORTHANC_ENABLE_DCMTK_JPEG)
+#  error ORTHANC_ENABLE_DCMTK_JPEG is not defined
+#endif
+
+#if !defined(ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS)
+#  error ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS is not defined
+#endif
+
+
+namespace OrthancStone
+{
+  namespace
+  {
+    using Orthanc::PixelTraits;
+    using Orthanc::PixelFormat;
+    using Orthanc::ImageAccessor;
+    using Orthanc::PixelFormat;
+
+    template<typename Orthanc::PixelFormat Format>
+    class PixelBinner
+    {
+      // "PixelBinner requires an arithmetic (integer or floating-point) pixel format"
+      typedef typename Orthanc::PixelTraits<Format>::PixelType PixelType;
+      BOOST_STATIC_ASSERT(boost::is_arithmetic<PixelType>::value);
+    
+    public:
+      PixelBinner(HistogramData& hd, double minValue, double maxValue)
+        : hd_(hd)
+        , minValue_(minValue)
+        , maxValue_(maxValue)
+        , division_(1.0 / hd_.binSize)
+      {
+        ORTHANC_ASSERT(hd_.bins.size() > 0);
+        ORTHANC_ASSERT(maxValue > minValue);
+      }
+
+      ORTHANC_FORCE_INLINE void AddPixel(PixelType p)
+      {
+        if (p <= minValue_)
+        {
+          hd_.bins[0] += 1;
+        }
+        else if (p >= maxValue_)
+        {
+          hd_.bins.back() += 1;
+        }
+        else
+        {
+          double distanceFromMin = p - minValue_;
+          size_t binIndex = static_cast<size_t>(
+            std::floor(distanceFromMin * division_));
+          if (binIndex >= hd_.bins.size())
+            binIndex = hd_.bins.size() - 1;
+          hd_.bins[binIndex] += 1;
+        }
+      }
+    private:
+      HistogramData&        hd_;
+      double                minValue_;
+      double                maxValue_;
+      double                division_;
+    };
+
+    template<PixelFormat Format>
+    struct Histogram
+    {
+      typedef typename PixelTraits<Format>::PixelType PixelType;
+
+      static void Apply(const Orthanc::ImageAccessor& img, HistogramData& hd,
+                        double minValue = 0, 
+                        double maxValue = 0)
+      {
+        ORTHANC_ASSERT(Format == img.GetFormat(), 
+                       "Internal error. Wrong template histogram type");
+    
+        const size_t height = img.GetHeight();
+        const size_t width = img.GetHeight();
+
+        if ((minValue == 0) && (maxValue == 0))
+        {
+          throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented);
+          //ORTHANC_ASSERT(boost::is_integral<PixelType>::value, 
+          //  "Min and max values must be supplied for float-based histogram");
+          //
+          //PixelTraits<Format>::SetMinValue(minValue);
+          //PixelTraits<Format>::SetMaxValue(maxValue);
+        }
+
+        hd.minValue = minValue;
+
+        // the following code is not really pretty but ensures 
+        size_t numBins = static_cast<size_t>(
+          std::ceil((maxValue - minValue) / hd.binSize));
+
+        hd.bins.resize(numBins);
+        std::fill(hd.bins.begin(), hd.bins.end(), 0);
+
+        PixelBinner<Format> binner(hd, minValue, maxValue);
+        for (uint32_t y = 0; y < height; ++y)
+        {
+          const PixelType* curPix = reinterpret_cast<const PixelType*>(
+            img.GetConstRow(y));
+          
+          for (uint32_t x = 0; x < width; x++, curPix++)
+          {
+            binner.AddPixel(*curPix);
+          }
+        }
+      }
+    };
+
+
+    template<PixelFormat Format>
+    struct ComputeMinMax__
+    {
+      typedef typename PixelTraits<Format>::PixelType PixelType;
+
+      static void Apply(const Orthanc::ImageAccessor& img,
+                        PixelType& minValue, PixelType& maxValue)
+      {
+        ORTHANC_ASSERT(Format == img.GetFormat(), 
+                       "Internal error. Wrong template histogram type");
+
+        const size_t height = img.GetHeight();
+        const size_t width = img.GetHeight();
+
+        if (height * width == 0)
+        {
+          throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat);
+        }
+
+        // min and max are crossed below. Think about it. This is OK :)
+        PixelTraits<Format>::SetMaxValue(minValue);
+        PixelTraits<Format>::SetMinValue(maxValue);
+
+        for (uint32_t y = 0; y < height; ++y)
+        {
+          const PixelType* curPix = reinterpret_cast<const PixelType*>(
+            img.GetConstRow(y));
+
+          for (uint32_t x = 0; x < width; x++, curPix++)
+          {
+            if (*curPix <= minValue)
+              minValue = *curPix;
+            if (*curPix >= maxValue)
+              maxValue = *curPix;
+          }
+        }
+      }
+    };
+
+    template<PixelFormat Format>
+    void ComputeMinMax_(const Orthanc::ImageAccessor& img, 
+                        double& minValue, double& maxValue)
+    {
+      typedef typename PixelTraits<Format>::PixelType PixelType;
+      PixelType minValuePix = PixelType();
+      PixelType maxValuePix = PixelType();
+      ComputeMinMax__<Format>::Apply(img, minValuePix, maxValuePix);
+      minValue = static_cast<double>(minValuePix);
+      maxValue = static_cast<double>(maxValuePix);
+    }
+    
+    template<PixelFormat Format>
+    void ComputeHistogram_(const Orthanc::ImageAccessor& img, HistogramData& hd)
+    {
+      typedef typename PixelTraits<Format>::PixelType PixelType;
+      PixelType minValue = PixelType();
+      PixelType maxValue = PixelType();
+      ComputeMinMax__<Format>::Apply(img, minValue, maxValue);
+      
+      // make bins a little bigger to center integer pixel values
+      Histogram<Format>::Apply(img, hd, 
+                               static_cast<double>(minValue) - 0.5, 
+                               static_cast<double>(maxValue) + 0.5);
+    }
+  }
+
+  void ComputeHistogram(const Orthanc::ImageAccessor& img,
+                        HistogramData& hd, double binSize)
+  {
+    using namespace Orthanc;
+
+    hd.binSize = binSize;
+
+    // dynamic/static bridge
+    switch (img.GetFormat())
+    {
+    case PixelFormat_Grayscale8:
+      ComputeHistogram_<PixelFormat_Grayscale8>       (img, hd);
+      break;
+    case PixelFormat_Grayscale16:
+      ComputeHistogram_<PixelFormat_Grayscale16>      (img, hd);
+      break;
+    case PixelFormat_SignedGrayscale16:
+      ComputeHistogram_<PixelFormat_SignedGrayscale16>(img, hd);
+      break;
+    case PixelFormat_Float32:
+      ComputeHistogram_<PixelFormat_Float32>          (img, hd);
+      break;
+    case PixelFormat_Grayscale32:
+      ComputeHistogram_<PixelFormat_Grayscale32>      (img, hd);
+      break;
+    case PixelFormat_Grayscale64:
+      ComputeHistogram_<PixelFormat_Grayscale64>      (img, hd);
+      break;
+    default:
+      throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat);
+    }
+  }
+
+  void ComputeMinMax(const Orthanc::ImageAccessor& img,
+                     double& minValue, double& maxValue)
+  {
+    using namespace Orthanc;
+
+    // dynamic/static bridge
+    switch (img.GetFormat())
+    {
+    case PixelFormat_Grayscale8:
+      ComputeMinMax_<PixelFormat_Grayscale8>       (img, minValue, maxValue);
+      break;                                                
+    case PixelFormat_Grayscale16:                           
+      ComputeMinMax_<PixelFormat_Grayscale16>      (img, minValue, maxValue);
+      break;                                                
+    case PixelFormat_SignedGrayscale16:                     
+      ComputeMinMax_<PixelFormat_SignedGrayscale16>(img, minValue, maxValue);
+      break;                                                
+    case PixelFormat_Float32:                               
+      ComputeMinMax_<PixelFormat_Float32>          (img, minValue, maxValue);
+      break;                                                
+    case PixelFormat_Grayscale32:                           
+      ComputeMinMax_<PixelFormat_Grayscale32>      (img, minValue, maxValue);
+      break;                                                
+    case PixelFormat_Grayscale64:                           
+      ComputeMinMax_<PixelFormat_Grayscale64>      (img, minValue, maxValue);
+      break;
+    default:
+      throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat);
+    }
+
+  }
+
+  void DumpHistogramResult(std::string& s, const HistogramData& hd)
+  {
+    std::stringstream ss;
+    ss << "Histogram:\n";
+    ss << "==========\n";
+    ss << "\n";
+    ss << "minValue        : " << hd.minValue << "\n";
+    ss << "binSize         : " << hd.binSize << "\n";
+    ss << "bins.size()     : " << hd.bins.size() << "\n";
+    ss << "bins            :\n";
+    double curBinStart = hd.minValue;
+    size_t pixCount = 0;
+    for (size_t i = 0; i < hd.bins.size(); ++i)
+    {
+      ss << "index: " << i << " (from " << curBinStart << " to "
+        << curBinStart + hd.binSize << ") : " << hd.bins[i] << " pixels\n";
+      curBinStart += hd.binSize;
+      pixCount += hd.bins[i];
+    }
+    ss << "total pix. count: " << pixCount << "\n";
+    s = ss.str();
+  }
+
+
+  bool ImageToolbox::IsDecodingSupported(Orthanc::DicomTransferSyntax& transferSyntax)
+  {
+    switch (transferSyntax)
+    {
+      case Orthanc::DicomTransferSyntax_LittleEndianImplicit:
+      case Orthanc::DicomTransferSyntax_LittleEndianExplicit:
+      case Orthanc::DicomTransferSyntax_DeflatedLittleEndianExplicit:
+      case Orthanc::DicomTransferSyntax_BigEndianExplicit:
+      case Orthanc::DicomTransferSyntax_RLELossless:
+        return true;
+
+#if (ORTHANC_ENABLE_DCMTK == 1) && (ORTHANC_ENABLE_DCMTK_JPEG == 1)
+      case Orthanc::DicomTransferSyntax_JPEGProcess1:
+      case Orthanc::DicomTransferSyntax_JPEGProcess2_4:
+      case Orthanc::DicomTransferSyntax_JPEGProcess14:
+      case Orthanc::DicomTransferSyntax_JPEGProcess14SV1:
+        return true;
+#endif
+      
+#if (ORTHANC_ENABLE_DCMTK == 1) && (ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS == 1)
+      case Orthanc::DicomTransferSyntax_JPEGLSLossless:
+      case Orthanc::DicomTransferSyntax_JPEGLSLossy:
+        return true;
+#endif
+      
+      default:
+        return false;
+    }
+  }
+}