#include "stdafx.h"
#include "OxfordControllerWrapper.h"
#include "tinyxml2.h"
#include "XMLSerialization.h"
#include "COTSUtilityDllFunExport.h"
using namespace System;
using namespace System::Windows;
using namespace System::Collections::Generic;
using namespace System::Collections::ObjectModel;
using namespace System::Collections::Specialized;
using namespace System::ComponentModel;
using namespace System::Windows::Forms;
using namespace System::Threading;
/// <summary>
/// The oxford controller channels.
/// Always collect xray by this channels.
/// </summary>
const int g_nOxfordControllerChannels = 4096;   // use 2k to collect xray spectrum
const int g_nOxfordControllerProcessTime = 4;
const int g_nOxfordControllerEnergyRange = 20;

const int g_nOxfordControllerEventWaitTimerInt = 100;
const int g_nOxfordControllerEventSleepTimerInt = 100;

const long g_nMicrocopeConnectTimeOutMilliSeconds = 2000;

// Oxford single point delay time(ms)
const long g_nSinglePointCollectDelay = 3000;
const long g_nSingleFeatureCollectDelay = 5000;
const long g_nXrayControllerConnectTimeOutMilliSeconds = 10000;
const long g_nImageTimeOutMilliSeconds = 40000;
const long g_nStageTimeOutMilliSeconds = 15000;



OxfordControllerWrapper::OxfordControllerWrapper(void)
	: m_bIsStageUpdated(false)
	, m_bBeamPositionSet(false)
{
	//_dataType = ImageDataType::DataByte;

	m_startControllerEvent = gcnew AutoResetEvent(false);
	m_endControllerEvent = gcnew AutoResetEvent(false);

}

void OxfordControllerWrapper::CloseClient(void)
{
	if (_controllerThread && _controllerThread->IsAlive)
	{
	}

	_controllerThread->Abort();
	//_controllerThread = nullptr;
	_microscopeController = nullptr;
	_edSpectrumController = nullptr;
	_imageAcqusitionController = nullptr;
	_edsChordListController = nullptr;
	_SEMQuantController = nullptr;
	
	
}

OxfordControllerWrapper::~OxfordControllerWrapper(void)
{	
	if (_controllerThread && _controllerThread->IsAlive)
	{
	}

	CloseClient();
}

OxfordControllerWrapper::!OxfordControllerWrapper(void)
{
	if (_controllerThread && _controllerThread->IsAlive)
	{
		
	}
	
	CloseClient();
}

bool OxfordControllerWrapper::Init()
{
	if (_controllerThread != nullptr && _controllerThread->IsAlive)
	{
		return true;
	}
	_controllerThread = gcnew Thread(gcnew ThreadStart(this, &OxfordControllerWrapper::ControllerThreadFunction));
	m_startControllerEvent->Reset();
	m_endControllerEvent->Reset();

	_controllerThread->Start();

	return true;
}

void OxfordControllerWrapper::ControllerThreadFunction()
{
	if (_microscopeController == nullptr)
	{
		CreateMicroscopeController();
	}

	if (_edSpectrumController == nullptr)
	{
		CreateEdsSpectrumController();
	}

	if (_imageAcqusitionController == nullptr)
	{
		CreateImageAcqusitionController();
	}

	if (_edsChordListController == nullptr)
	{
		CreateChordlistController();
	}

	while (true)
	{
		while (true)
		{
			if (m_startControllerEvent->WaitOne(0, true))
			{
				m_startControllerEvent->Reset();

				break;
			}

 			Application::DoEvents();
			Thread::Sleep(g_nOxfordControllerEventSleepTimerInt);
		}

		switch (_oxfordControllerData.m_nCommand)
		{



		case OxfordControllerCommand::COLLECT_IMAGE:
		{
			if (!StartImageCollecting())
			{
				_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
				m_endControllerEvent->Set();
			}
			else
			{
				_oxfordControllerData.m_nState = OxfordControllerState::WORKING;
			}
		}
			
		break;

		case OxfordControllerCommand::COLLECT_XRAYPOINT:
		{
			auto edsController = CreateEdsSpectrumController();

			bool bRet = false;

			if (edsController && _oxfordControllerData.m_pSpectrumData)
			{
				edsController->BeginMultipleAcquisition();
				LogTrace(__FILE__,__LINE__,_T("BeginMultipleAcquisition...(single point)"));

				if (SetBeamPosition(_oxfordControllerData.m_dBeamPositionX, _oxfordControllerData.m_dBeamPositionY))
				{
					bRet = StartXrayCollecting(_oxfordControllerData.m_nAcTime);
				}
			}

			if (!bRet)
			{
				_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
				m_endControllerEvent->Set();
			}
			else
			{
				_oxfordControllerData.m_nState = OxfordControllerState::WORKING;
			}
		}

		break;

		case OxfordControllerCommand::COLLECT_CURRENTXRAYPOINT:
		{
			auto edsController = CreateEdsSpectrumController();

			bool bRet = false;

			if (edsController && _oxfordControllerData.m_pSpectrumData)
			{
				edsController->BeginMultipleAcquisition();
				

				if (m_bBeamPositionSet)
				{
					m_bBeamPositionSet = false;
					bRet = true;
				

					Point pos(_oxfordControllerData.m_dBeamPositionX * _oxfordControllerData.m_dPixelSize, _oxfordControllerData.m_dBeamPositionY * _oxfordControllerData.m_dPixelSize);
					auto edsSettings = GetEdsSpectrumSettings();
					edsSettings->ScanSettings->AcquisitionRegion->CreatePointRegion(pos);
				}
				else
				{
					bRet = SetCurrentBeamPosition();
					
				}

				if (bRet)
				{
					bRet = StartXrayCollecting(_oxfordControllerData.m_nAcTime);
				}
			}

			if (!bRet)
			{
				_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
				m_endControllerEvent->Set();
			}
			else
			{
				_oxfordControllerData.m_nState = OxfordControllerState::WORKING;
			}
		}

		break;

		case OxfordControllerCommand::COLLECT_XRAYPOINTS:
		{
			auto edsController = CreateEdsSpectrumController();
			if (!edsController || !_oxfordControllerData.m_pXrayDataList || _oxfordControllerData.m_nXrayDataCount <= 0)
			{
				_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
				m_endControllerEvent->Set();
			}
			else
			{
				auto edsSettings = GetEdsSpectrumSettings();

				_oxfordControllerData.m_nCollectedXrayCounts = 0;

				_oxfordControllerData.m_nState = OxfordControllerState::WORKING;

				edsController->BeginMultipleAcquisition();
				

				for (int i = 0; i < _oxfordControllerData.m_nXrayDataCount; ++i)
				{
					OxfordXrayData* pXrayData = &_oxfordControllerData.m_pXrayDataList[i];

					// <note>Accept pixel position to convert to oxford normalized beam position</note>
					Point pos(pXrayData->m_nPosX * _oxfordControllerData.m_dPixelSize, pXrayData->m_nPosY * _oxfordControllerData.m_dPixelSize);
					edsSettings->ScanSettings->AcquisitionRegion->CreatePointRegion(pos);
					edsSettings->EdSettings->AcquisitionTime = TimeSpan::FromMilliseconds(_oxfordControllerData.m_nAcTime);

					edsController->StartAcquisition(edsSettings);

					
				}
			}
		}

		break;

		case OxfordControllerCommand::COLLECT_XRAYCHOILDLIST:
		{
			auto edsController = CreateEdsSpectrumController();
			if (!edsController || !_oxfordControllerData.m_pXrayDataList || _oxfordControllerData.m_nXrayDataCount <= 0)
			{
				_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
				m_endControllerEvent->Set();
			}
			else
			{
				auto edsSettings = GetEdsSpectrumSettings();

				_oxfordControllerData.m_nCollectedXrayCounts = 0;
				_oxfordControllerData.m_nState = OxfordControllerState::WORKING;

				edsController->BeginMultipleAcquisition();				

				_oxfordControllerData.m_nCollectedXrayCounts = 0;
				
				for (int i = 0; i < _oxfordControllerData.m_nXrayDataCount; i++)
				{
					List< OINA::Extender::Data::Chord^>^ chords = gcnew List<OINA::Extender::Data::Chord^>();

					for (int j = 0; j < _oxfordControllerData.m_pXrayDataList[i].m_nChordNum; j++)
					{
						int X = _oxfordControllerData.m_pXrayDataList[i].m_ChordList[j].m_nX;
						int Y = _oxfordControllerData.m_pXrayDataList[i].m_ChordList[j].m_nY;
						int XLength = _oxfordControllerData.m_pXrayDataList[i].m_ChordList[j].m_nLength;
						OINA::Extender::Data::Chord^ chord = gcnew OINA::Extender::Data::Chord(X, Y, XLength);
						chords->Add(chord);						
					}

					OINA::Extender::Data::ChordList^ chordsList = gcnew OINA::Extender::Data::ChordList(chords, _oxfordControllerData.m_dPixelSize);//1/1024.0

					edsSettings->ScanSettings->AcquisitionRegion->CreateChordListRegion(chordsList);
					edsSettings->EdSettings->AcquisitionTime = TimeSpan::FromMilliseconds(_oxfordControllerData.m_nAcTime);

					edsController->StartAcquisition(edsSettings);
					

				}				
			}

		}

		break;

		case OxfordControllerCommand::COLLECT_QUANTIFYSPECTRUM:

			if (!StartImageCollecting())
			{
				_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
				m_endControllerEvent->Set();
			}
			else
			{
				_oxfordControllerData.m_nState = OxfordControllerState::WORKING;
			}

			break;
		case OxfordControllerCommand::SET_POSITIONXY:
		{
			if (SetPositionXYToController(_oxfordControllerData.m_dPositionX, _oxfordControllerData.m_dPositionY))
			{
				_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;
			}
			else
			{
				_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
			}
			
			

			long nCollectedTime = 0;
			while (!m_bIsStageUpdated)
			{
				Application::DoEvents();
				
				Thread::Sleep(g_nOxfordControllerEventSleepTimerInt);


				
				nCollectedTime += g_nOxfordControllerEventSleepTimerInt;
				if (nCollectedTime > g_nStageTimeOutMilliSeconds)
				{


					_oxfordControllerData.m_nState = OxfordControllerState::FAILED;

				

					break;
				}
			}
			Thread::Sleep(1000);

			m_endControllerEvent->Set();
		}

		break;
		case OxfordControllerCommand::STOP_ACQUISITION:
		{
			auto edsController = CreateEdsSpectrumController();


			while (edsController->IsAcquiring)
			{
				edsController->StopAcquisition();
			}

		}
			break;
		case OxfordControllerCommand::END_MULTIPLEACQUISITION:
			{
				auto edsController = CreateEdsSpectrumController();

				while (edsController->IsAcquiring)
				{
					edsController->StopAcquisition();
				}

				edsController->EndMultipleAcquisition();

			}

		  break;
		
		}
	}

}

bool OxfordControllerWrapper::IsConnected()
{
	if (IsMicroscopeColumnConnected()
		&& IsMicroscopeStageConnected())
	{
		return true;
	}
	else
	{
		return false;
	}

	
}

bool OxfordControllerWrapper::IsMicroscopeColumnConnected()
{
	auto microscopeController = this->CreateMicroscopeController();
	if (microscopeController != nullptr)
	{
		return microscopeController->ColumnConnectionStatus->IsConnected;
	}

	return false;
}

bool OxfordControllerWrapper::IsMicroscopeStageConnected()
{
	auto microscopeController = this->CreateMicroscopeController();
	if (microscopeController != nullptr)
	{
		return microscopeController->StageConnectionStatus->IsConnected;
	}

	return false;
}

IStageConditions^ OxfordControllerWrapper::GetStageConditions()
{
	if (!IsMicroscopeStageConnected())
	{
		return nullptr;
	}

	return _microscopeController->StageConditions;
}

bool OxfordControllerWrapper::GetPositionXY(double& a_dPosX, double& a_dPosY)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::GET_POSITIONXY;


	double dX, dY;

	if (GetPositionXYFromController(dX, dY))
	{
		_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;
		_oxfordControllerData.m_dPositionX = dX;
		_oxfordControllerData.m_dPositionY = dY;
	}
	else
	{
		_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
	}


	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		a_dPosX = _oxfordControllerData.m_dPositionX;
		a_dPosY = _oxfordControllerData.m_dPositionY;

		return true;
	}

	return false;
}

/// <summary>
/// Get position xy from controller
/// </summary>
/// <param name="a_dPosX">The double of position x.</param>
/// <param name="a_dPosY">The double of position y.</param>
/// <returns>
/// Return the position xy from controller
/// </returns>
bool OxfordControllerWrapper::GetPositionXYFromController(double& a_dPosX, double& a_dPosY)
{
	if (!IsMicroscopeStageConnected())
	{
		return false;
	}

	while(!_microscopeController->StageCapabilities->StageX->CanRead)
	{
		Sleep(100);
	}
	a_dPosX = _microscopeController->StageConditions->StageX * 1000.0;

	while(!_microscopeController->StageCapabilities->StageY->CanRead)
	{
		Sleep(100);
	}
	a_dPosY = _microscopeController->StageConditions->StageY * 1000.0;

	return true;
}

/// <summary>
/// Set the position xy
/// </summary>
/// <param name="a_dPosX">The double of position x.</param>
/// <param name="a_dPosY">The double of position y.</param>
/// <returns>TRUE if success, otherwise FALSE</returns>
bool OxfordControllerWrapper::SetPositionXY(const double a_dPosX, const double a_dPosY)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::SET_POSITIONXY;

	_oxfordControllerData.m_dPositionX = a_dPosX;
	_oxfordControllerData.m_dPositionY = a_dPosY;
	m_bIsStageUpdated = false;
	m_startControllerEvent->Set();
	long nCollectedTime = 0;
	while (true)
	{
		
			if (m_endControllerEvent->WaitOne(0, true))
			{
				m_endControllerEvent->Reset();
				break;
			}
		


		Application::DoEvents();
		
	}

	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		return true;
	}
	else
	{

		return false;
	}


	

	
}

bool OxfordControllerWrapper::SetPositionXYToController(const double a_dPosX, const double a_dPosY)
{
	if (!IsMicroscopeStageConnected())
	{
		return false;
	}

	Dictionary<Stage, double>^ stageDictionary = gcnew Dictionary<Stage, double>;
	stageDictionary->Add(Stage::StageX, a_dPosX / 1000.0);
	stageDictionary->Add(Stage::StageY, a_dPosY / 1000.0);

	_microscopeController->SetStageConditions(stageDictionary);

	return true;
}

bool OxfordControllerWrapper::GetWorkingDistance(double& a_dWorkingDistance)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::GET_WORKINGDISTANCE;


	double dWD = 0;

	if (GetWorkingDistanceFromController(dWD))
	{
		_oxfordControllerData.m_dWorkingDistance = dWD;
		_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;
	}
	else
	{
		_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
	}

	

	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		a_dWorkingDistance = _oxfordControllerData.m_dWorkingDistance;

		return true;
	}

	return false;
}

bool OxfordControllerWrapper::GetWorkingDistanceFromController(double& a_dWorkingDistance)
{
	if (!IsMicroscopeColumnConnected())
	{
		return false;
	}

	a_dWorkingDistance = _microscopeController->ColumnConditions->WorkingDistance;

	return true;
}

bool OxfordControllerWrapper::SetWorkingDistance(double a_dWorkingDistance)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::SET_WORKINGDISTANCE;

	_oxfordControllerData.m_dWorkingDistance = a_dWorkingDistance;


	if (SetWorkingDistanceToController(_oxfordControllerData.m_dWorkingDistance))
	{
		_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;
	}
	else
	{
		_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
	}



	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		return true;
	}

	return false;
}

bool OxfordControllerWrapper::SetWorkingDistanceToController(double a_dWorkingDistance)
{
	if (!IsMicroscopeColumnConnected())
	{
		return false;
	}

	Dictionary<Column, double>^ columnDictionary = gcnew Dictionary<Column, double>;
	columnDictionary->Add(Column::WorkingDistance, a_dWorkingDistance);

	_microscopeController->SetColumnConditions(columnDictionary);

	return true;
}

bool OxfordControllerWrapper::GetMagnification(double& a_dMagnification)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::GET_MAGNIFICATION;


	double dMag = 0;

	if (GetMagnificationFromController(dMag))
	{
		_oxfordControllerData.m_dMagnification = dMag;
		_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;
	}
	else
	{
		_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
	}

	

	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		a_dMagnification = _oxfordControllerData.m_dMagnification;

		return true;
	}

	return false;
}

bool OxfordControllerWrapper::GetMagnificationFromController(double& a_dMagnification)
{
	if (!IsMicroscopeColumnConnected())
	{
		return false;
	}

	a_dMagnification = _microscopeController->ColumnConditions->Magnification;
	return true;
}

bool OxfordControllerWrapper::SetMagnification(double a_dMagnification)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::SET_MAGNIFICATION;

	_oxfordControllerData.m_dMagnification = a_dMagnification;


	if (SetMagnificationToController(_oxfordControllerData.m_dMagnification))
	{
		_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;
	}
	else
	{
		_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
	}

	

	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		return true;
	}

	return false;
}

bool OxfordControllerWrapper::SetMagnificationToController(double a_dMagnification)
{
	if (!IsMicroscopeColumnConnected())
	{
		return false;
	}

	Dictionary<Column, double>^ columnDictionary = gcnew Dictionary<Column, double>;
	columnDictionary->Add(Column::Magnification, a_dMagnification);

	_microscopeController->SetColumnConditions(columnDictionary);

	return true;
}

bool OxfordControllerWrapper::GetHighVoltage(double& a_dHighVoltage)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::GET_HIGHVOTAGE;


	double dValue = 0;

	if (GetHighVoltageFromController(dValue))
	{
		_oxfordControllerData.m_dHighVotage = dValue;
		_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;
	}
	else
	{
		_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
	}

	

	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		a_dHighVoltage = _oxfordControllerData.m_dHighVotage;

		return true;
	}

	return false;
}

bool OxfordControllerWrapper::GetHighVoltageFromController(double& a_dHighVoltage)
{
	if (!IsMicroscopeColumnConnected())
	{
		return false;
	}

	a_dHighVoltage = _microscopeController->ColumnConditions->HighVoltage;
	return true;
}

bool OxfordControllerWrapper::SetHighVoltage(double a_dHighVoltage)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::SET_HIGHVOTAGE;

	_oxfordControllerData.m_dHighVotage = a_dHighVoltage;


	if (SetHighVoltageToController(_oxfordControllerData.m_dHighVotage))
	{
		_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;
	}
	else
	{
		_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
	}



	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		return true;
	}

	return false;
}

bool OxfordControllerWrapper::SetHighVoltageToController(double a_dHighVoltage)
{
	if (!IsMicroscopeColumnConnected())
	{
		return false;
	}

	Dictionary<Column, double>^ columnDictionary = gcnew Dictionary<Column, double>;
	columnDictionary->Add(Column::HighVoltage, a_dHighVoltage);

	_microscopeController->SetColumnConditions(columnDictionary);

	return true;
}

bool OxfordControllerWrapper::GetBeamOn(bool& a_bBeamOn)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::GET_BEAMON;

	//m_startControllerEvent->Set();

	bool bValue;

	if (GetBeamOnFromController(bValue))
	{
		_oxfordControllerData.m_bBeamOn = bValue;
		_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;
	}
	else
	{
		_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
	}

	

	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		a_bBeamOn = _oxfordControllerData.m_bBeamOn;

		return true;
	}

	return false;
}

bool OxfordControllerWrapper::GetBeamOnFromController(bool& a_bBeamOn)
{
	if (!IsMicroscopeColumnConnected())
	{
		return false;
	}

	double dValue = _microscopeController->ColumnConditions->BeamOn;

	// notice: false: 0.0 and true: 1.0
	a_bBeamOn = dValue > 0.1;

	return true;
}

bool OxfordControllerWrapper::SetBeamOn(bool a_bBeamOn)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::SET_BEAMON;

	_oxfordControllerData.m_bBeamOn = a_bBeamOn;


	if (SetBeamOnToController(_oxfordControllerData.m_bBeamOn))
	{
		_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;
	}
	else
	{
		_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
	}



	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		return true;
	}

	return false;
}

bool OxfordControllerWrapper::SetBeamOnToController(bool a_bBeamOn)
{
	if (!IsConnected())
	{
		return false;
	}

	(void)a_bBeamOn;
	//// notice: false: 0.0 and true: 1.0
	//double dValue = a_bBeamOn? 1.0: 0.0;

	//Dictionary<Column, double>^ columnDictionary = gcnew Dictionary<Column, double>;
	//columnDictionary->Add(Column::BeamOn, dValue);

	//_microscopeController->SetColumnConditions(columnDictionary);

	return true;
}

bool OxfordControllerWrapper::GetBeamBlank(bool& a_bBeamBlank)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::GET_BEAMBLANK;


	bool bValue;

	if (GetBeamBlankFromController(bValue))
	{
		_oxfordControllerData.m_bBeamBlank = bValue;
		_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;
	}
	else
	{
		_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
	}


	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		a_bBeamBlank = _oxfordControllerData.m_bBeamBlank;

		return true;
	}

	return false;
}

bool OxfordControllerWrapper::GetBeamBlankFromController(bool& a_bBeamBlank)
{
	if (!IsConnected())
	{
		return false;
	}

	// todo: get beam blank
	a_bBeamBlank = true;

	return true;
}

bool OxfordControllerWrapper::SetBeamBlank(bool a_bBeamBlank)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::SET_BEAMBLANK;

	_oxfordControllerData.m_bBeamBlank = a_bBeamBlank;




	if (SetBeamBlankToController(_oxfordControllerData.m_bBeamBlank))
	{
		_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;
	}
	else
	{
		_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
	}

	

	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		return true;
	}

	return false;
}

bool OxfordControllerWrapper::SetBeamBlankToController(bool a_bBeamBlank)
{
	if (!IsConnected())
	{
		return false;
	}

	// todo: set beam blank
	(void)a_bBeamBlank;
	//try
	//{
	//    _microscopeController->ColumnConditions->BeamBlank = a_bBeamBlank;
	//}
	//catch(...)
	//{
	//}

	return true;
}

bool OxfordControllerWrapper::GetExternalScan(bool& a_bExternal)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::GET_EXTERNAL;



	bool bValue;

	if (GetExternalScanFromController(bValue))
	{
		_oxfordControllerData.m_bExternal = bValue;
		_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;
	}
	else
	{
		_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
	}


	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		a_bExternal = _oxfordControllerData.m_bExternal;

		return true;
	}

	return false;
}

bool OxfordControllerWrapper::GetExternalScanFromController(bool& a_bExternal)
{
	if (!IsConnected())
	{
		return false;
	}

	a_bExternal = _microscopeController->IsInExternalScan;

	return true;
}

bool OxfordControllerWrapper::SetExternalScan(bool a_bExternal)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::SET_EXTERNAL;

	_oxfordControllerData.m_bExternal = a_bExternal;

	
	if (SetExternalScanToController(_oxfordControllerData.m_bExternal))
	{
		_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;
	}
	else
	{
		_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
	}

	

	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		return true;
	}

	return false;
}

bool OxfordControllerWrapper::SetExternalScanToController(bool a_bExternal)
{
	if (!IsConnected())
	{
		return false;
	}

	_microscopeController->SetExternalScan(a_bExternal);

	return true;
}

/// <summary>
/// Set the beam position
/// </summary>
/// <param name="a_dPosX">The double of position x.</param>
/// <param name="a_dPosY">The double of position y.</param>
/// <note>Accept pixel position to convert to oxford normalized beam position</note>
/// <returns>TRUE if success, otherwise FALSE</returns>
bool OxfordControllerWrapper::SetBeamPosition(const double a_dPosX, const double a_dPosY)
{
	auto edsSettings = GetEdsSpectrumSettings();
	if (!edsSettings)
	{
		return false;
	}

	m_bBeamPositionSet = true;
	_oxfordControllerData.m_dBeamPositionX = a_dPosX;
	_oxfordControllerData.m_dBeamPositionY = a_dPosY;



	return true;
}

bool OxfordControllerWrapper::SetCurrentBeamPosition()
{
	auto edsSettings = GetEdsSpectrumSettings();
	if (!edsSettings)
	{
		return false;
	}

	auto ret = edsSettings->ScanSettings->AcquisitionRegion->CreateMicroscopeRegion();

	return ret != nullptr;
}

bool OxfordControllerWrapper::StartXrayCollecting(const long a_nAcTimeMilliseconds)
{
	auto edsController = CreateEdsSpectrumController();
	if (!edsController)
	{
		return false;
	}

	auto edsSettings = GetEdsSpectrumSettings();

	edsSettings->EdSettings->AcquisitionTime = TimeSpan::FromMilliseconds(a_nAcTimeMilliseconds);

	auto spectrum = edsController->StartAcquisition(edsSettings);

	return spectrum != nullptr;
}

bool OxfordControllerWrapper::StopXrayCollecting()
{
	auto edsController = CreateEdsSpectrumController();
	if (!edsController)
	{
		return false;
	}

	if (edsController->IsAcquiring)
	{
		edsController->StopAcquisition();
	}

	return !edsController->IsAcquiring;
}
void  OxfordControllerWrapper::XraySpectrumProcess(OINA::Extender::Data::Ed::IEdSpectrum^ spectrum)
{
	try
	{

		//Quantify processing
		IEdSpectrumProcessing^ EdSpectrumProcessing = ProcessingFactory::CreateSpectrumProcessing();

		// Use the autoIdSettings to define elements that are known or elements that you want to exclude. They also list elements that cannot be identified
		IAutoIdSettings^ autoIdSettings = ProcessingFactory::CreateAutoIdSettings();
		EdSpectrumProcessing->IdentifyElements(spectrum, autoIdSettings);

		ISEMQuantSettings^ settings = ProcessingFactory::CreateSEMQuantSettings();

		// While it is possible to choose other elements, Oxygen is the only supported element by stoichiometry.
		settings->CombinedElement = 8;
		settings->Normalised = true;

		ISEMQuantStatus^ quantStatus = EdSpectrumProcessing->SEMQuantifySpectrum(spectrum, settings);//(a_nChannelData, OIHelper::SEMQuantSettings);

		IEnumerable<ISEMQuantResult^>^ Results = quantStatus->Results;

		if (_oxfordControllerData.m_nCommand == OxfordControllerCommand::COLLECT_XRAYPOINT
			|| _oxfordControllerData.m_nCommand == OxfordControllerCommand::COLLECT_CURRENTXRAYPOINT)
		{
			//Get element result for single point
			auto ie = Results->GetEnumerator();

			String^ Quant = gcnew String("");

			while (ie->MoveNext())
			{
				ISEMQuantResult^ result = ie->Current;

				if (result->WeightPercent != 0)
				{
					Quant += "Quant=";
					Quant += ElementProperties::GetElementSymbol(result->AtomicNumber);
					Quant += ",";
					Quant += result->LineType.ToString();
					Quant += ",";
					Quant += result->WeightPercent.ToString();
				}
			}

			_oxfordControllerData.m_sElementResult = Quant;
			ConvertSpectrumData(spectrum, _oxfordControllerData.m_pSpectrumData, _oxfordControllerData.m_nBufferSize);

			_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;

			auto edsController = CreateEdsSpectrumController();
			if (edsController)
			{
				edsController->EndMultipleAcquisition();
				m_endControllerEvent->Set();

			}
		}
		else
		{

			//Get element result for single point
			auto ie = Results->GetEnumerator();

			String^ Quant = gcnew String("");
			while (ie->MoveNext())
			{
				ISEMQuantResult^ result = ie->Current;

				if (result->WeightPercent != 0)
				{
					Quant += "Quant=";
					Quant += ElementProperties::GetElementSymbol(result->AtomicNumber);
					Quant += ",";
					Quant += result->LineType.ToString();
					Quant += ",";
					Quant += result->WeightPercent.ToString();
					Quant += "\n";
				}
			}

			CString msg = Quant;
			unsigned char* dst = _oxfordControllerData.m_pXrayDataList[_oxfordControllerData.m_nCollectedXrayCounts].m_strElementResult;
			for (int i = 0; i < msg.GetLength(); i++)
			{
				dst[i] = (unsigned char)msg.GetAt(i);
			}

			ConvertSpectrumData(spectrum, _oxfordControllerData.m_pXrayDataList[_oxfordControllerData.m_nCollectedXrayCounts].m_pXrayData, _oxfordControllerData.m_nBufferSize);



			_oxfordControllerData.m_nCollectedXrayCounts++;
			if (_oxfordControllerData.m_nCollectedXrayCounts == _oxfordControllerData.m_nXrayDataCount)
			{
				_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;

				auto edsController = CreateEdsSpectrumController();
				if (edsController)
				{
					edsController->EndMultipleAcquisition();
					m_endControllerEvent->Set();

				}
			}
		}
	}
	catch (Exception^ ex)
	{
		CString sMessage(_T("OnXrayAcquisitionFinished failed") + ex->ToString());

		LogErrorTrace(__FILE__, __LINE__, sMessage);
	}

}
void OxfordControllerWrapper::OnXrayAcquisitionFinished(Object^ sender, OINA::Extender::Acquisition::AcquisitionFinishedEventArgs<OINA::Extender::Data::Ed::IEdSpectrum^>^ e)
{
	try
	{

		//Quantify processing
		IEdSpectrumProcessing^ EdSpectrumProcessing = ProcessingFactory::CreateSpectrumProcessing();

		// Use the autoIdSettings to define elements that are known or elements that you want to exclude. They also list elements that cannot be identified
		IAutoIdSettings^ autoIdSettings = ProcessingFactory::CreateAutoIdSettings();
		EdSpectrumProcessing->IdentifyElements(e->Value, autoIdSettings);

		ISEMQuantSettings^ settings = ProcessingFactory::CreateSEMQuantSettings();

		// While it is possible to choose other elements, Oxygen is the only supported element by stoichiometry.
		settings->CombinedElement = 8;
		settings->Normalised = true;

		ISEMQuantStatus^ quantStatus = EdSpectrumProcessing->SEMQuantifySpectrum(e->Value, settings);//(a_nChannelData, OIHelper::SEMQuantSettings);

		IEnumerable<ISEMQuantResult^>^ Results = quantStatus->Results;

		if (_oxfordControllerData.m_nCommand == OxfordControllerCommand::COLLECT_XRAYPOINT
			|| _oxfordControllerData.m_nCommand == OxfordControllerCommand::COLLECT_CURRENTXRAYPOINT)
		{
			//Get element result for single point
			auto ie = Results->GetEnumerator();

			String^ Quant = gcnew String("");

			while (ie->MoveNext())
			{
				ISEMQuantResult^ result = ie->Current;

				if (result->WeightPercent != 0)
				{
					Quant += "Quant=";
					Quant += ElementProperties::GetElementSymbol(result->AtomicNumber);
					Quant += ",";
					Quant += result->LineType.ToString();
					Quant += ",";
					Quant += result->WeightPercent.ToString();
				}
			}

			_oxfordControllerData.m_sElementResult = Quant;
			ConvertSpectrumData(e->Value, _oxfordControllerData.m_pSpectrumData, _oxfordControllerData.m_nBufferSize);

			_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;

			auto edsController = CreateEdsSpectrumController();
			if (edsController)
			{
				edsController->EndMultipleAcquisition();
				m_endControllerEvent->Set();

			}
		}
		else
		{

			//Get element result for single point
			auto ie = Results->GetEnumerator();

			String^ Quant = gcnew String("");
			while (ie->MoveNext())
			{
				ISEMQuantResult^ result = ie->Current;

				if (result->WeightPercent != 0)
				{
					Quant += "Quant=";
					Quant += ElementProperties::GetElementSymbol(result->AtomicNumber);
					Quant += ",";
					Quant += result->LineType.ToString();
					Quant += ",";
					Quant += result->WeightPercent.ToString();
					Quant += "\n";
				}
			}

			CString msg = Quant;
			unsigned char* dst = _oxfordControllerData.m_pXrayDataList[_oxfordControllerData.m_nCollectedXrayCounts].m_strElementResult;
			for (int i = 0; i < msg.GetLength(); i++)
			{
				dst[i] = (unsigned char)msg.GetAt(i);
			}

			ConvertSpectrumData(e->Value, _oxfordControllerData.m_pXrayDataList[_oxfordControllerData.m_nCollectedXrayCounts].m_pXrayData, _oxfordControllerData.m_nBufferSize);



			_oxfordControllerData.m_nCollectedXrayCounts++;
			if (_oxfordControllerData.m_nCollectedXrayCounts == _oxfordControllerData.m_nXrayDataCount)
			{
				_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;

				auto edsController = CreateEdsSpectrumController();
				if (edsController)
				{
					edsController->EndMultipleAcquisition();
					m_endControllerEvent->Set();

				}
			}
		}
	}
	catch (Exception^ ex)
	{
		CString sMessage(_T("OnXrayAcquisitionFinished failed") + ex->ToString());

		LogErrorTrace(__FILE__, __LINE__, sMessage);
	}
}

void OxfordControllerWrapper::OnXrayChordlistFinished(Object^, OINA::Extender::Acquisition::AcquisitionFinishedEventArgs<OINA::Extender::Data::Ed::IEdMap^>^ e)
{
}

bool OxfordControllerWrapper::CollectXrayPoint(const double a_dPosX, const double a_dPosY, const long a_nAcTimeMilliseconds, long* a_pSpectrumData, DWORD a_nBufferSize)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::COLLECT_XRAYPOINT;
	_oxfordControllerData.m_dBeamPositionX = a_dPosX;
	_oxfordControllerData.m_dBeamPositionY = a_dPosY;
	_oxfordControllerData.m_nAcTime = a_nAcTimeMilliseconds;
	_oxfordControllerData.m_pSpectrumData = a_pSpectrumData;
	_oxfordControllerData.m_nBufferSize = a_nBufferSize;

	m_startControllerEvent->Set();

	Thread::Sleep(a_nAcTimeMilliseconds);
	long nCollectedTime = a_nAcTimeMilliseconds;
	long nCollectedTimeLimit = nCollectedTime + g_nSinglePointCollectDelay + g_nXrayControllerConnectTimeOutMilliSeconds;

	while (true)
	{
		if (m_endControllerEvent->WaitOne(0, true))
		{
			m_endControllerEvent->Reset();
			break;
		}

		Application::DoEvents();
		Thread::Sleep(g_nOxfordControllerEventSleepTimerInt);

		nCollectedTime += g_nOxfordControllerEventSleepTimerInt;
		if (nCollectedTime > nCollectedTimeLimit)
		{


			_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
			_oxfordControllerData.m_nCommand = OxfordControllerCommand::END_MULTIPLEACQUISITION;
			m_startControllerEvent->Set();
			
			m_endControllerEvent->Reset();

			break;
		}
	}

	_oxfordControllerData.m_pSpectrumData = nullptr;
	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		return true;
	}



	return false;
}

bool OxfordControllerWrapper::CollectXrayPoint(const long a_nAcTimeMilliseconds, long* a_pSpectrumData, DWORD a_nBufferSize)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::COLLECT_CURRENTXRAYPOINT;
	_oxfordControllerData.m_nAcTime = a_nAcTimeMilliseconds;
	_oxfordControllerData.m_pSpectrumData = a_pSpectrumData;
	_oxfordControllerData.m_nBufferSize = a_nBufferSize;

	m_startControllerEvent->Set();

	Thread::Sleep(a_nAcTimeMilliseconds);
	long nCollectedTime = a_nAcTimeMilliseconds;
	long nCollectedTimeLimit = nCollectedTime + g_nSinglePointCollectDelay + g_nXrayControllerConnectTimeOutMilliSeconds;

	while (true)
	{
		if (m_endControllerEvent->WaitOne(0, true))
		{
			m_endControllerEvent->Reset();
			break;
		}

		Application::DoEvents();
		Thread::Sleep(g_nOxfordControllerEventSleepTimerInt);

		nCollectedTime += g_nOxfordControllerEventSleepTimerInt;
		if (nCollectedTime > nCollectedTimeLimit)
		{


			_oxfordControllerData.m_nState = OxfordControllerState::FAILED;

			_oxfordControllerData.m_nCommand = OxfordControllerCommand::END_MULTIPLEACQUISITION;
			m_startControllerEvent->Set();

			m_endControllerEvent->Reset();

			break;
		}
	}

	_oxfordControllerData.m_pSpectrumData = nullptr;
	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		return true;
	}


	return false;
}

bool OxfordControllerWrapper::CollectXrayPoints(const long a_nAcTimeMilliseconds, OxfordXrayData* a_pXrayDataList, const long a_nXrayDataCount, DWORD a_nBufferSize)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::COLLECT_XRAYPOINTS;
	_oxfordControllerData.m_nAcTime = a_nAcTimeMilliseconds;
	_oxfordControllerData.m_pXrayDataList = a_pXrayDataList;
	_oxfordControllerData.m_nXrayDataCount = a_nXrayDataCount;
	_oxfordControllerData.m_nBufferSize = a_nBufferSize;

	

	Thread::Sleep(1000);

	m_startControllerEvent->Set();
	long nCollectedTime = 1000;
	long nCollectedTimeLimit = nCollectedTime + a_nXrayDataCount * g_nSinglePointCollectDelay + g_nXrayControllerConnectTimeOutMilliSeconds;

	while (true)
	{
		if (m_endControllerEvent->WaitOne(0, true))
		{
			m_endControllerEvent->Reset();
			break;
		}

		Application::DoEvents();
		Thread::Sleep(g_nOxfordControllerEventSleepTimerInt);

		nCollectedTime += g_nOxfordControllerEventSleepTimerInt;
		if (nCollectedTime > nCollectedTimeLimit)
		{


			_oxfordControllerData.m_nState = OxfordControllerState::FAILED;

			_oxfordControllerData.m_nCommand = OxfordControllerCommand::END_MULTIPLEACQUISITION;
			m_startControllerEvent->Set();

			m_endControllerEvent->Reset();

			break;
		}
	}

	_oxfordControllerData.m_pXrayDataList = nullptr;
	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		return true;
	}


	return false;
}

bool OxfordControllerWrapper::CollectXrayArea(const long a_nAcTimeMilliseconds, OxfordXrayData* a_pXrayDataList, const long a_nXrayDataCount, DWORD a_nBufferSize)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::COLLECT_XRAYCHOILDLIST;
	_oxfordControllerData.m_nAcTime = a_nAcTimeMilliseconds;
	_oxfordControllerData.m_pXrayDataList = a_pXrayDataList;

	_oxfordControllerData.m_nXrayDataCount = a_nXrayDataCount;//要采集的feature个数
	_oxfordControllerData.m_nCollectedXrayCounts = 0;

	_oxfordControllerData.m_nChordsNum = a_pXrayDataList[_oxfordControllerData.m_nCollectedXrayCounts].m_nChordNum;
	_oxfordControllerData.m_nCollectedChordsCount = 0;

	_oxfordControllerData.m_nBufferSize = a_nBufferSize;
	
	//当前采集的feature包含的像素的个数
	_oxfordControllerData.m_nPixelNum = a_pXrayDataList[_oxfordControllerData.m_nCollectedXrayCounts].m_nPixelNum;
	_oxfordControllerData.m_nCollectedPixelCounts = 0;

	Thread::Sleep(1000);

	m_startControllerEvent->Set();

	//Thread::Sleep(a_nAcTimeMilliseconds * a_nXrayDataCount);
	long nCollectedTime =1000;
	long nCollectedTimeLimit = nCollectedTime + a_nXrayDataCount * g_nSingleFeatureCollectDelay + g_nXrayControllerConnectTimeOutMilliSeconds;

	while (true)
	{
		if (m_endControllerEvent->WaitOne(0, true))
		{
			m_endControllerEvent->Reset();
			break;
		}

		Application::DoEvents();
		Thread::Sleep(g_nOxfordControllerEventSleepTimerInt);

		nCollectedTime += g_nOxfordControllerEventSleepTimerInt;
		if (nCollectedTime > nCollectedTimeLimit)
		{
			CString sMessage;
			sMessage.Format(_T("Error: Total collected time(%d) over limit(%d)"), nCollectedTime, nCollectedTimeLimit);
			
			LogErrorTrace(__FILE__,__LINE__,sMessage);
			sMessage.Format(_T("1Total collected xray %d / %d"), _oxfordControllerData.m_nCollectedXrayCounts, _oxfordControllerData.m_nXrayDataCount);
		
			LogErrorTrace(__FILE__, __LINE__, sMessage);

			_oxfordControllerData.m_nState = OxfordControllerState::FAILED;

			m_endControllerEvent->Reset();

			break;
		}
	}

	_oxfordControllerData.m_pXrayDataList = nullptr;
	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		return true;
	}

	CString sMessage;
	sMessage.Format(_T("CollectXrayArea failed."));
	LogErrorTrace(__FILE__, __LINE__, sMessage);
	

	return false;
}


bool OxfordControllerWrapper::ConvertSpectrumData(IEdSpectrum^ a_spectrum, long* a_pSpectrumData, int a_nBufferSize)
{
	if (!a_spectrum || !a_pSpectrumData)
	{
		return false;
	}
	memset(a_pSpectrumData, 0, sizeof(long) * a_nBufferSize);
	array<int>^ xrayData = gcnew array<int>(a_spectrum->NumberOfChannels);

	a_spectrum->GetChannelData(xrayData);

	double dZeroChannelValue = a_spectrum->ZeroChannelValue;

	int nChannelStart = 0;
	if (dZeroChannelValue < 0)  // zero channel value should less than zero
	{
		nChannelStart = (int)(-dZeroChannelValue / a_spectrum->ChannelWidth + 0.5);
	}

	int nDataLength = (int)(a_spectrum->EnergyRange * 1000 / a_spectrum->ChannelWidth + 0.5);

	double dStep1 = 1.0 / nDataLength;
	double dStep2 = 1.0 / a_nBufferSize;

	for (int i = 0; i < nDataLength; ++i)
	{
		int nValue = xrayData[i + nChannelStart] > 0 ? xrayData[i + nChannelStart] : 0;

		double dBinPos = i * dStep1;

		long nLeftBin = (long)(dBinPos / dStep2);

		// calculate % into left bin
		double dLeft_Percent = double(nLeftBin + 1) - dBinPos / dStep2;	// ((nLeftBin + 1)*dStep2 - dBinPos)/dStep2

		// calculate data into the left bin
		long nValueToLeftBin = (long)((double)nValue * dLeft_Percent + 0.5);

		// put data into bins
		a_pSpectrumData[nLeftBin] += nValueToLeftBin;
		if ((nLeftBin + 1) < (long)a_nBufferSize)
		{
			a_pSpectrumData[nLeftBin + 1] += (nValue - nValueToLeftBin);
		}
	}



	return true;
}

bool OxfordControllerWrapper::IsXrayCollecting()
{
	if (_edSpectrumController)
	{
		return _edSpectrumController->IsAcquiring;
	}

	return false;
}

bool OxfordControllerWrapper::IsImageCollecting()
{
	if (_imageAcqusitionController)
	{
		return _imageAcqusitionController->IsAcquiring;
	}

	return false;
}

bool OxfordControllerWrapper::IsQuantifySpectrumCollecting()
{
	if (_edSpectrumController)
	{
		return _edSpectrumController->IsAcquiring;
	}
	return false;
}

bool OxfordControllerWrapper::SetScanSpeed(const long a_nMilliseconds)
{
	auto imageAcqusitionSettings = GetImageAcqusitionSettings();

	imageAcqusitionSettings->ImageSettings->DwellTimeMicroSeconds = a_nMilliseconds;

	return true;
}

bool OxfordControllerWrapper::GetImageSize(long& a_nWidth, long& a_nHeight)
{
	a_nWidth = _oxfordControllerData.m_nImageWidth;
	a_nHeight = _oxfordControllerData.m_nImageHeight;

	return true;
}

bool OxfordControllerWrapper::SetImageSize(const long a_nWidth, const long a_nHeight)
{
	

	_oxfordControllerData.m_nImageWidth = a_nWidth;
	_oxfordControllerData.m_nImageHeight = a_nHeight;

	auto imageAcqusitionSettings = GetImageAcqusitionSettings();

	imageAcqusitionSettings->ScanSettings->AcquisitionRegion->CreateFullFieldRegion(1.0 / a_nWidth);

	return true;
}

bool OxfordControllerWrapper::CollectImage(int a)
{
	return true;
}

bool OxfordControllerWrapper::QuantifySpectrum(unsigned char* cResult)
{
	CString result = _oxfordControllerData.m_sElementResult;
	cResult = (unsigned char*)result.GetBuffer();
	return true;
}

bool OxfordControllerWrapper::CollectImage(BYTE* a_pImageBits)
{
	_oxfordControllerData.m_nCommand = OxfordControllerCommand::COLLECT_IMAGE;
	_oxfordControllerData.m_pImageBits = a_pImageBits;

	m_startControllerEvent->Set();
	long nCollectedTime = 0;
	long nCollectedTimeLimit = g_nImageTimeOutMilliSeconds;
	
	while (true)
	{
		if (m_endControllerEvent->WaitOne(0, true))
		{
			m_endControllerEvent->Reset();
			break;
		}

		Application::DoEvents();
		Thread::Sleep(g_nOxfordControllerEventWaitTimerInt);

		
		
		nCollectedTime += g_nOxfordControllerEventWaitTimerInt;
		if (nCollectedTime > nCollectedTimeLimit)
		{
			//this->CreateImageAcqusitionController();

			
			_oxfordControllerData.m_nCommand = OxfordControllerCommand::STOP_ACQUISITION;
			m_startControllerEvent->Set();


			_oxfordControllerData.m_nState = OxfordControllerState::FAILED;

			
			m_endControllerEvent->Reset();

			break;
		}


	}

	_oxfordControllerData.m_pImageBits = nullptr;
	if (_oxfordControllerData.m_nState == OxfordControllerState::SUCCEEDED)
	{
		return true;
	}

	return false;
}

bool OxfordControllerWrapper::ReadImageData(IElectronImage^ a_electronImage, BYTE* a_pImageBits)
{
	if (a_electronImage == nullptr)
	{


		return false;
	}

	if (a_pImageBits == NULL)
	{


		return false;
	}

	_oxfordControllerData.m_nImageWidth = a_electronImage->Width;
	_oxfordControllerData.m_nImageHeight = a_electronImage->Height;
	_oxfordControllerData.m_dPixelSize = a_electronImage->PixelSize;




	int nBytesPerPixel = a_electronImage->BytesPerPixel;
	int nImageSize = _oxfordControllerData.m_nImageWidth * _oxfordControllerData.m_nImageHeight;
	int nBufferSize = _oxfordControllerData.m_nImageWidth * _oxfordControllerData.m_nImageHeight * nBytesPerPixel;

	array<byte>^ imageData = gcnew array<byte>(nBufferSize);
	a_electronImage->GetData(imageData);

	// default, oxford will return short image, we need to convert to byte
	if (nBytesPerPixel == 2)
	{
		int nBSEValue = 0;
		for (int i = 0; i < nImageSize; ++i)
		{
			nBSEValue = imageData[0 + i * nBytesPerPixel] + imageData[1 + i * nBytesPerPixel] * 255;
			a_pImageBits[i] = (BYTE)(nBSEValue / 128.0 + 0.5);
		}
	}
	else
	{


		int nOffset = nBytesPerPixel - 1;
		for (int i = 0; i < nImageSize; ++i)
		{
			#ifdef _DEBUG
			        byte nValue = imageData[nBytesPerPixel - 1 + i * nBytesPerPixel];
			        a_pImageBits[i] = nValue;
			#else
			a_pImageBits[i] = imageData[nOffset + i * nBytesPerPixel];
			#endif
		}
	}

	return true;
}

bool OxfordControllerWrapper::StartImageCollecting()
{
	auto imageAcqusitionController = CreateImageAcqusitionController();
	auto imageAcqusitionSettings = GetImageAcqusitionSettings();

	if (imageAcqusitionController == nullptr)
	{
		return false;
	}

	if (imageAcqusitionSettings == nullptr)
	{
		return false;
	}

	try
	{
		List<IElectronImage^>^ electronImageList = gcnew List<IElectronImage^>();

		auto images = imageAcqusitionController->StartAcquisition(imageAcqusitionSettings);

		/*for each (auto eleImage in images)
		{
			electronImageList->Add(eleImage);
		}

		if (electronImageList->Count == 0)
		{
			_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
		}
		else if (!ReadImageData(electronImageList[0], _oxfordControllerData.m_pImageBits))
		{
			_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
		}
		else
		{
			_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;
		}

		m_endControllerEvent->Set();*/


		return images != nullptr;
	}
	catch (Exception^ /*ex*/)
	{
		CString sMessage(_T("StartImageCollecting: Start Acquisition failed"));
		
		LogErrorTrace(__FILE__,__LINE__,sMessage);
	}

	return false;
}

void OxfordControllerWrapper::OnImageAcquisitionFinished(Object^ /*sender*/, OINA::Extender::Acquisition::AcquisitionFinishedEventArgs<array<OINA::Extender::Data::Image::IElectronImage^ >^ >^ e)
{
	List<IElectronImage^>^ electronImageList = gcnew List<IElectronImage^>();
	try
	{

		for each (auto eleImage in e->Value)
		{
			electronImageList->Add(eleImage);
		}

		if (electronImageList->Count == 0)
		{
			_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
		}
		else if (!ReadImageData(electronImageList[0], _oxfordControllerData.m_pImageBits))
		{
			_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
		}
		else
		{
			_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;
		}
	}
	catch (Exception^ ex)
	{
		CString sMessage(_T("OnImageAcquisitionFinished failed")+ex->ToString());

		LogErrorTrace(__FILE__, __LINE__, sMessage);
	}
	m_endControllerEvent->Set();
}

void OxfordControllerWrapper::OnController_PixelProcessed(Object^ /*sender*/, OINA::Extender::EventArgs<OINA::Extender::Processing::Quant::IPixelSEMQuantStatus^ >^ e)
{
	_oxfordControllerData.m_nCollectedPixelCounts++;
	//更新当前feature的元素成分

	//Get element result for single point
	auto ie = e->Value->QuantStatus->Results->GetEnumerator();
	
	while (ie->MoveNext())
	{
		ISEMQuantResult^ result = ie->Current;

		if (result->WeightPercent != 0)
		{
			Element^ Quant = gcnew Element();

			Quant->m_nAotomaticNo = result->AtomicNumber;
			Quant->m_dWeight = result->WeightPercent;


			if (_oxfordControllerData.m_listElementResult == nullptr)
			{
				_oxfordControllerData.m_listElementResult = gcnew List<Element^ >();
				_oxfordControllerData.m_listElementResult->Add(Quant);
			}
			else
			{
				bool bFind = false;
				for (int i = 0; i < _oxfordControllerData.m_listElementResult->Count; i++)
				{
					Element^ result = _oxfordControllerData.m_listElementResult[i];

					if (Quant->m_nAotomaticNo == result->m_nAotomaticNo)
					{
						result->m_dWeight += Quant->m_dWeight;
						bFind = true;
					}
				}

				if (!bFind)
				{
					_oxfordControllerData.m_listElementResult->Add(Quant);
				}
			}
		}
	}

	//当前的chord数据中pixel没有采集完整
	if (_oxfordControllerData.m_nCollectedPixelCounts == _oxfordControllerData.m_nPixelNum)
	{
		//形成quant数据

		CString Quant = _T("");
		for (int i = 0; i < _oxfordControllerData.m_listElementResult->Count; i++)
		{

			Element^ result = _oxfordControllerData.m_listElementResult[i];

			Quant += "Quant=";			
			CString strAoto(ElementProperties::GetElementSymbol(result->m_nAotomaticNo));
			Quant += strAoto;
			Quant += ",";
			Quant += _T("K-serials");
			Quant += ",";
			CString strWeight = (result->m_dWeight / (double)_oxfordControllerData.m_nPixelNum).ToString();
			Quant += strWeight ;
			Quant += "\n";			
		}

		CString msg = Quant;
		unsigned char* dst = _oxfordControllerData.m_pXrayDataList[_oxfordControllerData.m_nCollectedXrayCounts].m_strElementResult;
		for (int i = 0; i < msg.GetLength(); i++)
		{
			dst[i] = (unsigned char)msg.GetAt(i);
		}

		_oxfordControllerData.m_nCollectedXrayCounts++;
		if (_oxfordControllerData.m_nCollectedXrayCounts < _oxfordControllerData.m_nXrayDataCount)
		{
			_oxfordControllerData.m_nPixelNum = _oxfordControllerData.m_pXrayDataList[_oxfordControllerData.m_nCollectedXrayCounts].m_nPixelNum;
			_oxfordControllerData.m_nCollectedPixelCounts = 0;
			_oxfordControllerData.m_listElementResult->Clear();
		}
		
	}

}
void OxfordControllerWrapper::OnController_ExperimentFinished(Object^ /*sender*/, OINA::Extender::Acquisition::AcquisitionFinishedEventArgs^ e)
{
	if (_oxfordControllerData.m_nCollectedXrayCounts == _oxfordControllerData.m_nXrayDataCount)
		_oxfordControllerData.m_nState = OxfordControllerState::SUCCEEDED;
	else
		_oxfordControllerData.m_nState = OxfordControllerState::FAILED;
	m_endControllerEvent->Set();
}
bool OxfordControllerWrapper::StopImageCollecting()
{
	auto imageAcqusitionController = CreateImageAcqusitionController();;

	try
	{
		if (imageAcqusitionController->IsAcquiring)
		{
			imageAcqusitionController->StopAcquisition();
		}
	}
	catch (Exception^ ex)
	{
		CString sMessage = ex->Message;
		CString sErrorMessage;
		     sErrorMessage.Format(_T("StopImageCollecting: Stop Acquisition caught(%s)"), sMessage);
	
		LogErrorTrace(__FILE__, __LINE__, sErrorMessage);
	}

	return !imageAcqusitionController->IsAcquiring;
}


IMicroscopeController^ OxfordControllerWrapper::CreateMicroscopeController()
{
	if (_microscopeController != nullptr)
	{
		return _microscopeController;
	}

	try
	{
		LogTrace(__FILE__, __LINE__, _T("CreateMicroscopeControl..."));
		_microscopeController = AcquireFactory::CreateMicroscopeControl();
	}
	catch(Exception^ ex)
	{
		CString sErrorMessage = ex->Message;
		AfxMessageBox(_T("oxford eds cann't work,you can change work mode to offline in the sysMgrApp to run offline mode！\nerror：")+ sErrorMessage);	
		LogErrorTrace(__FILE__, __LINE__, sErrorMessage);
		exit(0);
	}

	if (_microscopeController == nullptr)
	{
		CString sErrorMessage ="";
		AfxMessageBox(_T("oxford eds cann't work,you can change work mode to offline in the sysMgrApp to run offline mode！\nerror：") + sErrorMessage);
		LogErrorTrace(__FILE__, __LINE__, sErrorMessage);
		exit(0);
	}

	_microscopeController->ColumnChange += gcnew EventHandler<OINA::Extender::MicroscopeControl::ColumnEventArgs^>(this, &OxfordControllerWrapper::OnMicroscopeColumnUpdated);
	//_microscopeController->StageChange += gcnew EventHandler<OINA::Extender::MicroscopeControl::StageEventArgs^>(this, &OxfordControllerWrapper::OnMicroscopeStageUpdated);
	_microscopeController->ChangeCompleted += gcnew EventHandler<OINA::Extender::MicroscopeControl::CompletedEventArgs^>(this, &OxfordControllerWrapper::OnMicroscopeCompleted);

	m_bIsStageUpdated = false;

	auto nStart = GetTickCount64();
	auto nEnd = nStart;
	do
	{
		if (IsMicroscopeColumnConnected()
			&& IsMicroscopeStageConnected())
		{
			break;
		}

		nEnd = GetTickCount64();
	} while (nEnd >= nStart && nEnd <= (nStart + g_nMicrocopeConnectTimeOutMilliSeconds));
	return _microscopeController;
}

IEdSpectrumAcquisitionController^ OxfordControllerWrapper::CreateEdsSpectrumController()
{
	
	if (_edSpectrumController == nullptr)
	{
		LogTrace(__FILE__, __LINE__, _T("CreateEdSpectrumServer..."));
		_edSpectrumController = AcquireFactory::CreateEdSpectrumServer();

		_edSpectrumController->ExperimentFinished += gcnew EventHandler<OINA::Extender::Acquisition::AcquisitionFinishedEventArgs<OINA::Extender::Data::Ed::IEdSpectrum^>^>(this, &OxfordControllerWrapper::OnXrayAcquisitionFinished);

		auto edsSpectrumSettings = GetEdsSpectrumSettings();
		while (true)
		{
			if (_edSpectrumController->IsEdHardwareReady(edsSpectrumSettings))
			{
				if (edsSpectrumSettings->EdCapabilities->HasHardwareConnection)
				{
					break;
				}
			}
		}
	}

	return _edSpectrumController;
}


IEdSpectrumSettings^ OxfordControllerWrapper::GetEdsSpectrumSettings()
{
	if (_edsSpectrumSettings == nullptr)
	{
		_edsSpectrumSettings = AcquireFactory::CreateEdSpectrumSettings();

		if (_edsSpectrumSettings == nullptr)
		{
			CString sMessage(_T("Create EDS Spectrum setting failed."));		
			LogErrorTrace(__FILE__, __LINE__, sMessage);
			ASSERT(FALSE);
		}
		else
		{
			_edsSpectrumSettings->EdSettings->AcquisitionMode = EdAcquireMode::LiveTime;
			//_edsSpectrumSettings->EdSettings->AcquisitionTime = TimeSpan::FromSeconds(1);
			_edsSpectrumSettings->EdSettings->NumberOfChannels = g_nOxfordControllerChannels;
			_edsSpectrumSettings->EdSettings->ProcessTime = g_nOxfordControllerProcessTime;
			_edsSpectrumSettings->EdSettings->EnergyRange = g_nOxfordControllerEnergyRange;
		}
	}

	return _edsSpectrumSettings;
}

IImageAcquisitionController^ OxfordControllerWrapper::CreateImageAcqusitionController()
{
	if (_imageAcqusitionController == nullptr)
	{
		LogTrace(__FILE__, __LINE__, _T("CreateImageAcqusitionController..."));
		try
		{
			_imageAcqusitionController = AcquireFactory::CreateImageServer();
			
			//_imageAcqusitionController->ExperimentStarted += gcnew EventHandler<OINA::Extender::Acquisition::AcquisitionFinishedEventArgs<array<OINA::Extender::Data::Image::IElectronImage^ >^ >^>(this, &OxfordControllerWrapper::OnImageAcquisitioStarted);
			_imageAcqusitionController->ExperimentFinished += gcnew EventHandler<OINA::Extender::Acquisition::AcquisitionFinishedEventArgs<array<OINA::Extender::Data::Image::IElectronImage^ >^ >^>(this, &OxfordControllerWrapper::OnImageAcquisitionFinished);

			auto imageAcqusitionSettings = GetImageAcqusitionSettings();
			while (true)
			{
				if (_imageAcqusitionController->IsImageHardwareReady(imageAcqusitionSettings))
				{
					if (imageAcqusitionSettings->ImageCapabilities->HasHardwareConnection)
					{
						break;
					}
				}
			}
		}
		catch (Exception^ ex)
		{
			CString sMessage = ex->Message;
			CString sErrorMessage;
		
			LogErrorTrace(__FILE__, __LINE__, sErrorMessage);
			
		}
	}

	return _imageAcqusitionController;
}





IImageAcquisitionSettings^ OxfordControllerWrapper::GetImageAcqusitionSettings()
{
	if (_imageAcqusitionSettings == nullptr)
	{
		_imageAcqusitionSettings = AcquireFactory::CreateImageSettings();
		_imageAcqusitionSettings->ScanSettings->FrameCount = 1;

		IImageSettings^ imageSettings = _imageAcqusitionSettings->ImageSettings;
		//imageSettings->InputSources->ToList()->ForEach(i => imageSettings->EnableInputSource(i.Key, false));
		//auto imageList = Enumerable::ToList(imageSettings->InputSources);

		for each (KeyValuePair<OINA::Extender::Data::Image::ImageInputSources, bool>^ imputSource in imageSettings->InputSources)
		{
			imageSettings->EnableInputSource(imputSource->Key, false);
		}
		CString szXMLFileName = "./Config/ProData/HardwareConfig.xml";
		tinyxml2::XMLDocument doc;
		doc.LoadFile(szXMLFileName);//载入xml文件

		xmls::Slo subClass;
		xmls::xString sImageInputSources;
		subClass.Register("ImageInputSources", &sImageInputSources);
		subClass.Register("SemControllerName", &subClass);

		tinyxml2::XMLElement* rootNode;
		rootNode = doc.FirstChildElement(RootClassName);
		subClass.Serialize(false, &doc, rootNode);
		CString cImageInputSources = sImageInputSources.value().c_str();
		if (cImageInputSources == "BSE")
		{
			imageSettings->EnableInputSource(OINA::Extender::Data::Image::ImageInputSources::Bse, true);
		}
		else if (cImageInputSources == "SE")
		{
			imageSettings->EnableInputSource(OINA::Extender::Data::Image::ImageInputSources::SE, true);
		}
		else
		{
			imageSettings->EnableInputSource(OINA::Extender::Data::Image::ImageInputSources::None, true);
		}
		//Action<>
		//Enumerable::ToList(imageSettings->InputSources)->ForEach(imageSettings->EnableInputSource(i.Key, false));
		_imageAcqusitionSettings->ImageSettings->DwellTimeMicroSeconds = 20;
		_imageAcqusitionSettings->ScanSettings->AcquisitionRegion->CreateFullFieldRegion(1.0 / 1024.0);






	}

	return _imageAcqusitionSettings;
}

IEdChordListAcquisitionController^ OxfordControllerWrapper::CreateChordlistController()
{
	if (_edsChordListController == nullptr)
	{
		LogTrace(__FILE__, __LINE__, _T("CreateEdChordListServer..."));
		_edsChordListController = AcquireFactory::CreateEdChordListServer();

		_edsChordListController->PixelProcessed += gcnew EventHandler<OINA::Extender::EventArgs<OINA::Extender::Processing::Quant::IPixelSEMQuantStatus^>^>(this, &OxfordControllerWrapper::OnController_PixelProcessed); 
		_edsChordListController->ExperimentFinished += gcnew EventHandler<OINA::Extender::Acquisition::AcquisitionFinishedEventArgs^>(this, &OxfordControllerWrapper::OnController_ExperimentFinished); 
		
		auto edsChordListSettings = GetChordlistSettings();
		while (true)
		{
			if (_edsChordListController->IsEdHardwareReady(edsChordListSettings))
			{
				if (edsChordListSettings->EdCapabilities->HasHardwareConnection)
				{
					break;
				}
			}
		}
	}

	return _edsChordListController;
}

/// <summary>
/// Get some chordlists to acquire.
/// </summary>
/// <returns>The chordlists to acquire.</returns>
System::Collections::Generic::IReadOnlyList<ChordList^>^ GetChordLists()
{
	OINA::Extender::Data::Chord^ chord1 = gcnew OINA::Extender::Data::Chord(3, 0, 5);
	OINA::Extender::Data::Chord^ chord2 = gcnew OINA::Extender::Data::Chord(0, 0, 3);
	OINA::Extender::Data::Chord^ chord3 = gcnew OINA::Extender::Data::Chord(10, 0, 20);
	OINA::Extender::Data::Chord^ chord4 = gcnew OINA::Extender::Data::Chord(550, 44, 30);
	OINA::Extender::Data::Chord^ chord5 = gcnew OINA::Extender::Data::Chord(0, 270, 10);
	OINA::Extender::Data::Chord^ chord6 = gcnew OINA::Extender::Data::Chord(898, 634, 15);
	OINA::Extender::Data::Chord^ chord7 = gcnew OINA::Extender::Data::Chord(266, 768, 40);

	List< OINA::Extender::Data::Chord^>^ chords = gcnew List<OINA::Extender::Data::Chord^>();
	chords->Add(chord1);
	chords->Add(chord2);
	chords->Add(chord3);
	chords->Add(chord4);
	chords->Add(chord5);
	chords->Add(chord6);
	chords->Add(chord7);
	
	OINA::Extender::Data::ChordList^ chordsList = gcnew OINA::Extender::Data::ChordList(chords, 1/1024.0);
		
	List<ChordList^>^ ListchordsList = gcnew List<ChordList^>();
	ListchordsList->Add(chordsList);
	
	return ListchordsList;
}

IEdChordListSettings^ OxfordControllerWrapper::GetChordlistSettings()
{

	if (_edsChordListSetting == nullptr)
	{
		_edsChordListSetting = AcquireFactory::CreateEdChordListSettings();

		if (_edsChordListSetting == nullptr)
		{
			CString sMessage(_T("Create EDS chordlist setting failed."));
			LogErrorTrace(__FILE__, __LINE__, sMessage);
			
			ASSERT(FALSE);
		}
		else
		{
			_edsChordListSetting->EdSettings->AcquisitionMode = EdAcquireMode::LiveTime;
			//_edsChordListSetting->EdSettings->AcquisitionTime = TimeSpan::FromMilliseconds(100);// :FromSeconds(1);
			_edsChordListSetting->EdSettings->NumberOfChannels =4096;
			_edsChordListSetting->EdSettings->ProcessTime = g_nOxfordControllerProcessTime;
			_edsChordListSetting->EdSettings->EnergyRange = g_nOxfordControllerEnergyRange;
			
			/*_edsChordListSetting->AutoIdSettings->SetKnownElement(79, true);
			_edsChordListSetting->NumberOfProcessingThreads = 1;*/

			//_edsChordListSetting->ChordLists = GetChordLists();
		}
	}

	return _edsChordListSetting;
}

void OxfordControllerWrapper::LogMessage(CString a_sMessage)
{
	LogTrace(__FILE__, __LINE__, a_sMessage);
	
}