/* Distributed under the Apache License, Version 2.0.
   See accompanying NOTICE file for details.*/

#include <jni.h>
#include <iostream>
#include "CommonDataModel.h" 
#include "utils/unitconversion/UCCommon.h"
#include "utils/Logger.h"
#include "CommonDataModelTest.h"

extern "C"
JNIEXPORT void JNICALL Java_com_kitware_physiology_utilities_jniBridge_nativeInitialize(JNIEnv *env, jobject obj)
{
  Logger::Initialize();
}

extern "C"
JNIEXPORT void JNICALL Java_com_kitware_physiology_utilities_jniBridge_nativeDeinitialize(JNIEnv *env, jobject obj)
{
  CUnitConversionEngine::DestroyEngine();
  Logger::Deinitialize();// Free up logger before the DllMain quits so we can stop threads on windows
}

extern "C"
JNIEXPORT jlong JNICALL Java_com_kitware_physiology_datamodel_testing_CDMUnitTestDriver_nativeAllocate(JNIEnv *env, jobject obj)
{
  CommonDataModelTest *executor = new CommonDataModelTest();
  executor->GetLogger()->LogToConsole(false);
  return reinterpret_cast<jlong>(executor);
}

extern "C"
JNIEXPORT void JNICALL Java_com_kitware_physiology_datamodel_testing_CDMUnitTestDriver_nativeDelete(JNIEnv *env, jobject obj, jlong ptr)
{
  CommonDataModelTest *executor = reinterpret_cast<CommonDataModelTest*>(ptr);
  SAFE_DELETE(executor);
}

extern "C"
JNIEXPORT void JNICALL Java_com_kitware_physiology_datamodel_testing_CDMUnitTestDriver_nativeExecute(JNIEnv *env, jobject obj, jlong ptr, jstring test, jstring toDir)
{
  const char* testName = env->GetStringUTFChars(test, JNI_FALSE);
  const char* outputDir = env->GetStringUTFChars(toDir, JNI_FALSE);
  CommonDataModelTest *executor = reinterpret_cast<CommonDataModelTest*>(ptr);
  executor->RunTest(testName,outputDir);
  env->ReleaseStringUTFChars(test, testName);
  env->ReleaseStringUTFChars(toDir, outputDir);
}

// Tests if a value can be converted from 1 unit to another.
extern "C"
JNIEXPORT jboolean JNICALL Java_com_kitware_physiology_utilities_UnitConverter_nativeIsCompatibleWithUnit(JNIEnv *env, jobject obj, jstring testUnit, jstring unit)
{ 
  const char* unitBuf = env->GetStringUTFChars(unit, JNI_FALSE);
  const char* testUnitBuf = env->GetStringUTFChars(testUnit, JNI_FALSE);
  try
  {    
    CCompoundUnit theUnit(unitBuf);
    env->ReleaseStringUTFChars(unit, unitBuf);
    unitBuf = nullptr;
    // Assign to testUnit the ith string in the array
    
    CCompoundUnit theTestUnit(testUnitBuf);
    env->ReleaseStringUTFChars(testUnit, testUnitBuf);
    testUnitBuf = nullptr;

    // See if they are of the same quantity type (Dimension)
    if (*theUnit.GetDimension() == *theTestUnit.GetDimension())
      return JNI_TRUE;
    // See if the quantity types (Dimensions) are convertable
    double fromExp;
    CCompoundUnit mappingUnit;
    CUnitConversionEngine &uce = CUnitConversionEngine::GetEngine();
    if (uce.GetQuantityConversionParams(theUnit.GetDimension(), theTestUnit.GetDimension(), fromExp, mappingUnit))
      return JNI_TRUE;
  }
  catch (std::exception ex)
  {
    std::cerr << ex.what() << std::endl;
    if(unitBuf!=nullptr)
      env->ReleaseStringUTFChars(unit, unitBuf);
    if(testUnitBuf!=nullptr)
      env->ReleaseStringUTFChars(testUnit, testUnitBuf);
  }
  return JNI_FALSE;
}

// tests if a unit is the same quantity type as the provided unitTemplate
extern "C"
JNIEXPORT jboolean JNICALL Java_com_kitware_physiology_utilities_UnitConverter_nativeIsOfQuantityType(JNIEnv *env, jobject obj, jstring templateUnit, jstring unit)
{ 
  const char* unitBuf = env->GetStringUTFChars(unit, JNI_FALSE);
  const char* templateUnitBuf = env->GetStringUTFChars(templateUnit, JNI_FALSE);
  try
  {
    CCompoundUnit theUnit(unitBuf);
    env->ReleaseStringUTFChars(unit,unitBuf);
    unitBuf = nullptr;

    // Assign to testUnit the ith string in the array
    CCompoundUnit theTemplateUnit(templateUnitBuf);
    env->ReleaseStringUTFChars(templateUnit,templateUnitBuf);
    templateUnitBuf = nullptr;

    // See if they are of the same quantity type (Dimension)
    if (*theUnit.GetDimension() == *theTemplateUnit.GetDimension())
      return JNI_TRUE;
  }
  catch (std::exception ex)
  {
    std::cerr << ex.what() << std::endl;
    if (unitBuf != nullptr)
      env->ReleaseStringUTFChars(unit, unitBuf);
    if (templateUnitBuf != nullptr)
      env->ReleaseStringUTFChars(templateUnit, templateUnitBuf);
  }
  return JNI_FALSE;
}

// tests if a unit is the same quantity type as the provided unitTemplates
// list is an array of unit strings, like {"J", "cm", "Hz"}. (This example works for testing ELambdaNu.)
extern "C"
JNIEXPORT jboolean JNICALL Java_com_kitware_physiology_utilities_UnitConverter_nativeIsCompatibleWithUnitList(JNIEnv *env, jobject obj, jobjectArray list, jstring unit)
{ 
  if(list==nullptr)
    return JNI_FALSE;

  jboolean rtn = JNI_FALSE;
  const char* unitBuf = env->GetStringUTFChars(unit,JNI_FALSE);
  CCompoundUnit theUnit;
  try {
    theUnit.ParseString(unitBuf);
  }catch(std::exception& ex)
  {
    std::cerr << ex.what() << std::endl;
    env->ReleaseStringUTFChars(unit, unitBuf);
    return JNI_FALSE;
  }
  env->ReleaseStringUTFChars(unit,unitBuf);

  // Assign to numStrings the number of strings in the java array
  jstring testUnit;
  jsize numStrings = env->GetArrayLength(list);

  double fromExp;
  CCompoundUnit mappingUnit;
  CUnitConversionEngine &uce = CUnitConversionEngine::GetEngine();

  for (int i=0; i<numStrings; i++)
  {  
    // Assign to testUnit the ith string in the array
    testUnit = static_cast<jstring>(env->GetObjectArrayElement(list, i));
    const char* testUnitBuf = (char *)env->GetStringUTFChars(testUnit,JNI_FALSE);

    CCompoundUnit theTestUnit;
    try { theTestUnit.ParseString(testUnitBuf);}
    catch (std::exception& ex)
    {
      std::cerr << ex.what() << std::endl;
      env->ReleaseStringUTFChars(testUnit, testUnitBuf);
      return JNI_FALSE;
    }
    env->ReleaseStringUTFChars(testUnit, testUnitBuf);
    // See if they are of the same quantity type (Dimension)
    if (*theUnit.GetDimension() == *theTestUnit.GetDimension())
    {
      rtn=JNI_TRUE;
      break;
    }
    // See if the quantity types (Dimensions) are convertable
    if(uce.GetQuantityConversionParams(theUnit.GetDimension(), theTestUnit.GetDimension(), fromExp,mappingUnit))
    {
      rtn=JNI_TRUE;
      break;
    }
  }
  return rtn;
}

// list is an array of quantity type strings, like {"Energy", "Distance", "Frequency"}. (This example also works for testing ELambdaNu.)
extern "C"
JNIEXPORT jboolean JNICALL Java_com_kitware_physiology_utilities_UnitConverter_nativeIsOfQuantityTypes(JNIEnv *env, jobject obj, jobjectArray templateUnits, jstring unit)
{ 
  if(templateUnits==nullptr)
    return JNI_FALSE;

  jboolean rtn = JNI_FALSE;
  const char* unitBuf = env->GetStringUTFChars(unit,JNI_FALSE);
  CCompoundUnit theUnit;
  try 
  { theUnit.ParseString(unitBuf); unitBuf=nullptr;}
  catch (std::exception& ex)
  { 
    std::cerr << ex.what() << std::endl;  
    if(unitBuf != nullptr)
      env->ReleaseStringUTFChars(unit, unitBuf);
    return JNI_FALSE;
  }
  env->ReleaseStringUTFChars(unit, unitBuf);

  // Assign to numStrings the number of strings in the java array
  jstring testUnit;
  jsize numStrings = env->GetArrayLength(templateUnits);

  for (int i=0; i<numStrings; i++)
  {  
    // Assign to testUnit the ith string in the array
    testUnit = static_cast<jstring>(env->GetObjectArrayElement(templateUnits, i));
    const char* testUnitBuf = (char *)env->GetStringUTFChars(testUnit,JNI_FALSE);

    CCompoundUnit theTestUnit;
    try 
    { theTestUnit.ParseString(testUnitBuf); testUnitBuf =nullptr;}
    catch (std::exception& ex)
    { 
      std::cerr << ex.what() << std::endl;  
      if(testUnitBuf != nullptr)
        env->ReleaseStringUTFChars(testUnit, testUnitBuf);
      return JNI_FALSE;
    }
    env->ReleaseStringUTFChars(testUnit, testUnitBuf);
    
    // See if they are of the same quantity type (Dimension)
    if (*theUnit.GetDimension() == *theTestUnit.GetDimension())
    {
      rtn=JNI_TRUE;
      break;
    }
  }
  return rtn;
}
// basic conversion
extern "C"
JNIEXPORT jdouble JNICALL Java_com_kitware_physiology_utilities_UnitConverter_nativeConvert(JNIEnv *env, jobject obj, jdouble val, jstring unit_from, jstring unit_to)
{ 
  const char* uFrom = (const char*)env->GetStringUTFChars(unit_from,JNI_FALSE);
  const char* uTo = (char*)env->GetStringUTFChars(unit_to,JNI_FALSE);
  CPScalar cp(val,uFrom);
  jdouble jD = cp(uTo).GetValue();
  env->ReleaseStringUTFChars(unit_from,uFrom);
  env->ReleaseStringUTFChars(unit_to,uTo);
  return jD;
} 
// Conversion routine is as follows:
// to convert x km to y ft, where bkm is km bias value, Bkm is km bigness value, bft is ft bias value, and Bft is ft bigness value 
// y = ((x-bkm)*Bkm/Bft)+bft

extern "C"
// Returns true if succeeds
JNIEXPORT jboolean JNICALL Java_com_kitware_physiology_utilities_UnitConverter_nativeGenerateUnitConverterData
  (JNIEnv *env, jclass obj, jobject qtcd)
{
  int i;
  size_t fromDim, toDim;

  // Get ref to UnitConversionEngine singleton
  CUnitConversionEngine &uce = CUnitConversionEngine::GetEngine();

  // Prepare method IDs for later invocation
  jclass qtcdClass = env->GetObjectClass(qtcd);
  jmethodID SetNumberOfTypes;
  jmethodID SetMappingUnitBignessAndExponent;

  SetNumberOfTypes = env->GetMethodID(qtcdClass, "setNumberOfTypes", "(I)V");
  if (SetNumberOfTypes == nullptr)
  {
    std::cerr << "Unable to resolve method SetNumberOfTypes via JNI\n";
  }

  SetMappingUnitBignessAndExponent = env->GetMethodID(qtcdClass, "setMappingUnitBignessAndExponent",
    "(IIDD)V");
  if (SetMappingUnitBignessAndExponent == nullptr)
  {
    std::cerr << "Unable to resolve method SetMappingUnitBignessAndExponent via JNI\n";
  }

  // Get the storage for the type index, bigness, and bias arrays from the qtcd object
  // The java side should have already allocated storage for these arrays when it was given
  // the array of unit strings
  jintArray jTypeIdx;
  jdoubleArray jBigness;
  jdoubleArray jBias;
  jobjectArray jUnitList;

  jint *typeIdx;
  jdouble *bigness;
  jdouble *bias;

  jfieldID tempFieldID;
  jboolean isCopy;

  CCompoundUnit tempCU;
  const CUnitDimension *tempUD;
  
  tempFieldID = env->GetFieldID(qtcdClass, "fTypeIdx", "[I");
  if (tempFieldID == nullptr)
  {
    std::cerr << "Unable to resolve field TypeIdx via JNI\n";
  }
  jTypeIdx = static_cast<jintArray> (env->GetObjectField(qtcd,tempFieldID));
  typeIdx = env->GetIntArrayElements(jTypeIdx, &isCopy);

  tempFieldID = env->GetFieldID(qtcdClass, "fBigness", "[D");
  if (tempFieldID == nullptr)
  {
    std::cerr << "Unable to resolve field Bigness via JNI\n";
  }
  jBigness = static_cast<jdoubleArray>(env->GetObjectField(qtcd,tempFieldID));
  bigness = env->GetDoubleArrayElements(jBigness, &isCopy);

  tempFieldID = env->GetFieldID(qtcdClass, "fBias", "[D");
  if (tempFieldID == nullptr)
  {
    std::cerr << "Unable to resolve field Bias via JNI\n";
  }
  jBias = static_cast<jdoubleArray>(env->GetObjectField(qtcd,tempFieldID));
  bias = env->GetDoubleArrayElements(jBias, &isCopy);

  tempFieldID = env->GetFieldID(qtcdClass, "fUnitList", "[Ljava/lang/String;");
  if (tempFieldID == nullptr)
  {
    std::cerr << "Unable to resolve field TypeIdx via JNI\n";
  }
    jUnitList = static_cast<jobjectArray>(env->GetObjectField(qtcd,tempFieldID));
  int numUnits = env->GetArrayLength(jUnitList);

  // Turn the array of string objects holding the unit strings into a list we can work with
  // We'll keep each of the jstrings and pinned arrays of java chars in a vector so we can release them later,
  // and we'll also make a vector of C++ strings so that we don't keep constructing them 
  // repeatedly later.
  std::vector<jstring> JStringVec(numUnits);
  std::vector<const char *> UTFCharVec(numUnits);
  std::vector<std::string> StringVec(numUnits);
  
  for (i=0; i<numUnits; ++i)
  {
    JStringVec[i] = static_cast<jstring>(env->GetObjectArrayElement(jUnitList, i));
    UTFCharVec[i] = env->GetStringUTFChars(JStringVec[i], &isCopy);
    StringVec[i] = UTFCharVec[i];
  }

  // Create vector of dimension pointers. We'll search through these naively, but we shouldn't
  // have more than two or three dimensions to work with at a time
  std::vector<CUnitDimension> DimVec;
  bool dimFound;
  size_t dimIdx, numDims;

  // Loop over each string array element
  for (int unitIdx=0; unitIdx < numUnits; ++unitIdx)
  {
    // Create CompoundUnit from string
    tempCU.clear();
    try 
    {
      tempCU.ParseString(StringVec[unitIdx]);
    }
    catch (std::exception& ex)
    {
      std::cerr << ex.what() << std::endl;
      continue;
    }

    // Get UnitDimension from Compound Unit
    tempUD = tempCU.GetDimension();

    dimFound = false;
    numDims = DimVec.size();

    // Loop over all elements in vector of dimension pointers
    for (dimIdx = 0; dimIdx < numDims; ++dimIdx)
    {
      // If current element matches our UnitDimension, set Found  and DimIdx, and break
      if (*tempUD == DimVec[dimIdx])
      {
        dimFound = true;
        break;
      }
    }
    if (! dimFound)
    {
      DimVec.push_back(*tempUD);
      // dimIdx should already be where we want it
    }

    // Set TypeID for current string equal to dimIdx
    typeIdx[unitIdx] = static_cast<jint>(dimIdx);
    
    // Get bigness and bias of current CompoundUnit and store in corresponding vector elements
    bigness[unitIdx] = tempCU.GetBigness();
    bias[unitIdx] = tempCU.GetBias();
  }
  
  // Invoke SetNumberOfTypes method with length of dimension pointer vector as param
  numDims = DimVec.size();

  env->CallVoidMethod(qtcd, SetNumberOfTypes, numDims);

  double fromExp;
  CCompoundUnit mappingUnit;
  double mappingUnitBigness;

  // Loop "From" dimension over all the dimension pointers
  for (fromDim=0; fromDim < numDims; ++fromDim)
  {
    // Loop "To" dimension over all the dimension pointers
    for (toDim=0; toDim < numDims; ++toDim)
    {

      if (fromDim != toDim)
      {
        // Get exponent and mapping unit from UCE
        uce.GetQuantityConversionParams(&DimVec[fromDim], &DimVec[toDim], fromExp, mappingUnit);
        // Get bigness of mapping unit
        mappingUnitBigness = mappingUnit.GetBigness();
      }
      else
      {
        // exponent and mapping bigness are both 1.0 (identity transform)
        fromExp = 1.0;
        mappingUnitBigness = 1.0;
      }

      // Invoke SetMappingUnitBignessAndExponent method on qtcd object
      env->CallVoidMethod(qtcd, SetMappingUnitBignessAndExponent, fromDim, toDim, mappingUnitBigness, fromExp);
    }
  }

  // Release strings holding units
  for (i=0; i<numUnits; ++i)
  {
    env->ReleaseStringUTFChars(JStringVec[i], UTFCharVec[i]);
  }

  // Release the storage for the type index, bigness, and bias arrays from the qtcd object
  env->ReleaseIntArrayElements(jTypeIdx, typeIdx, 0);
  env->ReleaseDoubleArrayElements(jBigness, bigness, 0);
  env->ReleaseDoubleArrayElements(jBias, bias, 0);

  return JNI_TRUE;
}
