OTS/OTSIncAMeasureApp/1-OTSMeasure/Measure/ParamData/COTSMsrPrjResultData.cs

using OTSCLRINTERFACE;
using OTSDataType;
using OTSModelSharp.ServiceCenter;
using System;
using System.Collections.Generic;
using System.Data;
using System.Drawing;
using System.IO;
using System.Windows.Forms;
using System.Xml;
using static OTSDataType.otsdataconst;

namespace OTSModelSharp
{
    public class COTSMsrPrjResultData
    {

        // SEM stage data
        CSEMStageData m_pSEMStageData;
        //// stage
        CSampleHolder m_pStage;

        // general parameter
        COTSCommonParam m_CommonParam;



        // sample list
        List<COTSSample> m_listSamples = new List<COTSSample>();

     

        bool m_bModify;

        // path name
        String m_strPathName;

        // working sample index
        int m_nWorkingSampeIndex;

        const String UNTITLED_FILE_NAME = "Untitled";


        const String SMPL_MSR_RESULT_FIELDS_FILE_SUBFOLDER = "FIELD_FILES";

        // Inclusion file name
        const String SMPL_MSR_RESULT_INCLUSION_FILE = "Inclusion.db";//put all the table in one db file so that report can make join query.


        private otsdataconst.OTS_SysType_ID systemTypeId;
       

        public OTS_SysType_ID SystemTypeId { get => systemTypeId; set => systemTypeId = value; }

        public COTSMsrPrjResultData()
        {
            Init();

        }

        // initialization
        public void Init()
        {

            m_listSamples.Clear();
            //m_listHoleBSEImg.Clear();

            m_bModify = false;
            m_strPathName = "";
            m_nWorkingSampeIndex = -1;

        }



        public void SetPathName(String a_strPathName) { m_strPathName = a_strPathName; }

        public bool Load(string strPathName)
        {


            Cleanup();

            // check if the file exist 
            if (!FileExists(strPathName))
            {
                // shouldn't happen, file does not exist

                return false;
            }
            //获取测量项目文件
            XmlDocument doc = new XmlDocument();
            //载入xml文件
            doc.Load(strPathName);
            XmlNode root = doc.SelectSingleNode("XMLData");
            Serialize(false, doc, root);

            //设置测量项目文件路径
            SetPathName(strPathName);
           
            //-------------
            foreach (var smpl in m_listSamples)
            {
                // get path of the pathname
                

                List<COTSField> allMeasuredFlds = new List<COTSField>();
                CMsrSampleStatus poMsrStatus = new CMsrSampleStatus();

                CMsrResultItems poMsrResults = smpl.GetMsrResults();
                double aFldArea = smpl.CalculateAFieldArea();
               

                int w, h;
                smpl.GetBSESize(out w, out h);
                double pixelsize = smpl.CalculatePixelSize();
                var overlap = smpl.GetMsrParams().GetImageProcessParam().GetOverlapParam();

                var noParticledataFields = smpl.GetFieldsData();//there's only the field postion info in the xml file,so the initial filed has only postion info.
                List<COTSField> allflddata = new List<COTSField>();//contains all the field 

                if (GetAllFieldsFromDB(ref allMeasuredFlds, ref poMsrStatus,smpl.GetName(),ref poMsrResults, aFldArea, new Size(w, h), pixelsize))
                {
                    //------------complete the infomation that doesn't contain in database-----

                    foreach (var f in allMeasuredFlds)
                    {
                        f.SetPixelSize(pixelsize);
                        f.ImgWidth = w;
                        f.ImgHeight = h;
                        double effectiveWidth = f.ImgWidth * pixelsize - 2 * overlap;
                        double effectiveHeight = f.ImgHeight * pixelsize - 2 * overlap;
                        PointF fldPos = f.GetOTSPosition();
                        Point lt = new Point((int)fldPos.X - (int)effectiveWidth / 2, (int)fldPos.Y - (int)effectiveHeight / 2);
                        Point rb = new Point((int)fldPos.X + (int)effectiveWidth / 2, (int)fldPos.Y + (int)effectiveHeight / 2);
                        f.SetOTSRect(new OTSMeasureApp._0_OTSModel.OTSDataType.COTSRect(lt, rb));
                        f.SetMeasureSequence(f.GetId());
                        f.SetIsMeasureComplete(true);

                    }
                }
                //------------------------------
                foreach (var emptyfld in noParticledataFields)
                {
                    bool isMeasured = false;
                    foreach (var measuredField in allMeasuredFlds)
                    {
                        if (measuredField.PositionEquals(emptyfld))
                        {

                            allflddata.Add(measuredField);
                            isMeasured = true;
                            break;
                        }

                    }
                    if (!isMeasured)
                    {
                        emptyfld.SetPixelSize(pixelsize);
                        emptyfld.ImgWidth = w;
                        emptyfld.ImgHeight = h;
                        double effectiveWidth = emptyfld.ImgWidth * pixelsize - 2 * overlap;
                        double effectiveHeight = emptyfld.ImgHeight * pixelsize - 2 * overlap;
                        PointF fldPos = emptyfld.GetOTSPosition();
                        Point lt = new Point((int)fldPos.X - (int)effectiveWidth / 2, (int)fldPos.Y - (int)effectiveHeight / 2);
                        Point rb = new Point((int)fldPos.X + (int)effectiveWidth / 2, (int)fldPos.Y + (int)effectiveHeight / 2);
                        emptyfld.SetOTSRect(new OTSMeasureApp._0_OTSModel.OTSDataType.COTSRect(lt, rb));
                        emptyfld.SetIsMeasureComplete(false);
                        emptyfld.SetMeasureSequence(emptyfld.GetId());
                        allflddata.Add(emptyfld);
                    }


                }
                smpl.SetFieldsData(allflddata);
                // file validation
                smpl.SetMsrStatus(poMsrStatus);
                smpl.SetMsrResults(poMsrResults);
                List<Point> listCenterPoint = new List<Point>();
                Size rectSize = new Size();
                smpl.InitFieldPosData(out listCenterPoint, out rectSize);//init the underlevel fieldmgr object ,so that we can use it later


            }

            if (m_listSamples.Count > 0)
            {
                m_nWorkingSampeIndex = 0;
            }

            //-----------------------------------------
            return true;

        }

        // gets the name of the folder
        public String GetFolderName(String a_strPathName)
        {
            string str = "";

            str = Path.GetDirectoryName(a_strPathName);
            return str.ToString();
        }


        public bool FileExists(string a_sPath)
        {
            bool b_IsExists = File.Exists(a_sPath);
            return b_IsExists;
        }

        public bool DirectoryExists(string a_sPath)
        {
            bool b_IsExists = Directory.Exists(a_sPath);
            return b_IsExists;
        }
        // cleanup 
        public void Cleanup()
        {
            //m_listHoleBSEImg.Clear();
            m_listSamples.Clear();

            m_bModify = false;
            m_strPathName = "";
            m_nWorkingSampeIndex = -1;
        }

        // set modify flag
        public void SetModify(bool a_bModify = true) { m_bModify = a_bModify; }

        // file pathname
        public String GetPathName() { return m_strPathName; }

        public bool GetAllFieldsFromDB(ref List<COTSField> allFlds, ref CMsrSampleStatus status,string sampleName,ref CMsrResultItems rst, double aFieldArea, Size picSize, double pixelSize)
        {
          
            String strFilePath = GetFolderName(m_strPathName);
            if (strFilePath == "")
            {
                // file path string is an empty string 
                return false;
            }

            // field file sub folder string
            String strFieldFileSubFolder = strFilePath + "\\" + sampleName + "\\" + SMPL_MSR_RESULT_FIELDS_FILE_SUBFOLDER + "\\";


            String strIncAFilename = strFieldFileSubFolder + "\\" + SMPL_MSR_RESULT_INCLUSION_FILE;
            if (!FileExists(strIncAFilename))
            {
                return false;

            }
            List<System.Drawing.PointF> completedFldPositions = new List<System.Drawing.PointF>();
            CIncAFileMgr incAFileMgr = new CIncAFileMgr(strIncAFilename);
            var m_IncADataDB = incAFileMgr.GetIncADB();
            List<COTSField> allFldsWithdata = new List<COTSField>();
            m_IncADataDB.GetAllFieldsRecord(pixelSize, ref allFldsWithdata);

            var eleChemistryDB = incAFileMgr.GetPosXrayDBMgr().GetElementChemistryDB();
            Dictionary<string, CPosXrayClr> mapXrayInfo = new Dictionary<string, CPosXrayClr>();
            eleChemistryDB.GetAllMapedXrayInfo(ref mapXrayInfo);
            foreach (var f in allFldsWithdata)
            {
                foreach (var p in f.GetListAnalysisParticles())
                {
                    int curFldId = f.GetId();
                    int xrayId = p.GetAnalysisId();
                    string fldvec = "";
                    fldvec += curFldId.ToString();
                    fldvec += "_";
                    fldvec += xrayId.ToString();

                    if (mapXrayInfo.ContainsKey(fldvec))
                    {
                        var xray = mapXrayInfo[fldvec];

                        p.SetXray(xray);
                    }
                }
            }


            var xrayDataDBDB = incAFileMgr.GetPosXrayDBMgr().GetXrayDataDB();
            Dictionary<string, CPosXrayClr> mapXrayData = new Dictionary<string, CPosXrayClr>();// map structure:[(fieldId,xrayId),CPosXrayPtr],every element of this map represent one unique xraydata.
            xrayDataDBDB.GetAllMapedXrayData(ref mapXrayData);
            foreach (var f in allFldsWithdata)
            {
                foreach (var p in f.GetListAnalysisParticles())
                {
                    int curFldId = f.GetId();
                    int xrayId = p.GetAnalysisId();
                    string fldvec = "";
                    fldvec += curFldId.ToString();
                    fldvec += "_";
                    fldvec += xrayId.ToString();

                    if (mapXrayData.ContainsKey(fldvec))
                    {
                        var xray = mapXrayData[fldvec];
                        CPosXrayClr t2 = p.GetXray();
                        if (t2 == null)
                        {
                            t2 = new CPosXrayClr();
                            p.SetXray(t2);
                        }
                        t2.SetXrayData(xray.GetXrayData());

                    }
                }
            }


            CSegmentDB SegmentDB = incAFileMgr.GetSegmentDB();
            double msrFldsArea = 0;
            Dictionary<int, List<COTSParticleClr>> mapTypeParticles = new Dictionary<int, List<COTSParticleClr>>();//record typeId relevants particlelist;

            List<COTSSegmentClr> AllSegments;
            Dictionary<string, List<COTSSegmentClr>> mapSegments = new Dictionary<string, List<COTSSegmentClr>>();
            if (SegmentDB.GetAllSegmentsRecord(mapSegments))
            {

                foreach (var fld in allFldsWithdata)
                {
                    int fldId = fld.GetId();
                    List<COTSParticleClr> parts = fld.GetListAnalysisParticles();
                    foreach (var part in parts)
                    {
                        string fldvec = "";
                        fldvec += fldId.ToString();
                        fldvec += "_";
                        fldvec += part.GetParticleId().ToString();


                        if (mapSegments.ContainsKey(fldvec))
                        {
                            COTSFeatureClr f = new COTSFeatureClr();
                            AllSegments = mapSegments[fldvec];
                            f.SetSegmentsList(AllSegments, true);
                            part.SetFeature(f);

                            if (mapTypeParticles.ContainsKey(part.GetType()))
                            {
                                mapTypeParticles[part.GetType()].Add(part);
                            }
                            else
                            {
                                List<COTSParticleClr> ps = new List<COTSParticleClr>();
                                ps.Add(part);
                                mapTypeParticles.Add(part.GetType(), ps);
                            }

                        }

                      
                    }
                    //msrFldsArea += aFieldArea;


                }
            }

            var fielddb = incAFileMgr.GetFieldDB();
            var fielddata = fielddb.GetTableQueryForDataTable();
            msrFldsArea = aFieldArea * fielddata.Rows.Count;
            foreach (DataRow r in fielddata.Rows)
            {
                var p = new Point(Convert.ToInt32(r[(int)CFieldTable.ColumnID.N_FIELDPOS_X]), Convert.ToInt32(r[(int)CFieldTable.ColumnID.N_FIELDPOS_Y]));
                completedFldPositions.Add(p);
            }

            status.SetCompletedFieldsCenter(completedFldPositions);


            //add the empty field(there's no any particle in the bse image,so the field is empty)
            foreach (var p in completedFldPositions)
            {
                bool haveData = false;
                var emptyFld = new COTSField(p, pixelSize);
               
                foreach (var fld in allFldsWithdata)
                {

                    if (fld.PositionEquals(emptyFld))
                    {
                        haveData = true;
                        allFlds.Add(fld);
                        break;
                    }

                }
                if (!haveData)
                {
                    allFlds.Add(emptyFld);
                }


            }

            // get MsrStatus info from DB.
            var m_GenInfoDB = incAFileMgr.GetGeneralInfoDB();//DBStoreFile类
            String strTimeStart = "";
            String strTimeEnd = "";
            String strRstStatus = "";

            m_GenInfoDB.GetStringValue(m_GenInfoDB.GetTableItemNameTimeStart(), ref strTimeStart);
            m_GenInfoDB.GetStringValue(m_GenInfoDB.GetTableItemNameTimeEnd(), ref strTimeEnd);
            m_GenInfoDB.GetStringValue(m_GenInfoDB.GetTableItemNameResultStatus(), ref strRstStatus);



            DateTime timeStart, timeEnd;
            try
            {
                timeStart = Convert.ToDateTime(ConvertFormatOfDateString(strTimeStart)); //此处为兼容之前得测量得结果可以打开，故在此进行数据格式变换
                timeEnd = Convert.ToDateTime(ConvertFormatOfDateString(strTimeEnd));
            }
            catch
            {
                timeStart = Convert.ToDateTime(strTimeStart); //此处为兼容之前得测量得结果可以打开，故在此进行数据格式变换
                timeEnd = Convert.ToDateTime(strTimeEnd);
            }
            status.SetStartTime(timeStart);
            status.SetEndTime(timeEnd);
            status.SetUsedTime(timeEnd - timeStart);
            status.SetStatus((OTS_MSR_SAMPLE_STATUS)Convert.ToInt32(strRstStatus));

            //get MsrResults data from map.
            List<CMsrResultItem> rstItms = new List<CMsrResultItem>();
            double allPartArea = 0;
            int typeNum;
            
            foreach (var typeParticles in mapTypeParticles)
            {
                typeNum = 0;
                double typeArea = 0;
                CMsrResultItem rstItm = new CMsrResultItem();
                foreach (var p in typeParticles.Value)
                {
                    typeNum += 1;
                    typeArea += p.GetActualArea();
                }
                rstItm.SetTypeId(typeParticles.Key);
                rstItm.SetNumber((uint)typeNum);
                rstItm.SetArea(Convert.ToDouble(typeArea.ToString("0.00")));
                rstItm.SetName(typeParticles.Value[0].GetTypeName());
                rstItms.Add(rstItm);
                allPartArea += typeArea;
            }
            rst.SetResultItems(rstItms);
            rst.SetMeasuredArea(Convert.ToUInt64(msrFldsArea * 1000000));
            rst.SetRatio(allPartArea / (msrFldsArea * 1000000));
            return true;

            //return false;
        }

        string ConvertFormatOfDateString(string Time)
        {

            string[] str1 = Time.Split(' ');

            string[] str2 = str1[0].Split('/');
            return str2[2] + "/" + str2[1] + "/" + str2[0] + " " + str1[1];
        }
        public string GetSampleWorkingFolder(string sampleName)
        {
            var pathname = FileHelper.GetFolderName(GetPathName());

            var samplePathName = pathname + "\\" + sampleName + "\\";
            return samplePathName;
        }
        public bool Save()
        {
            // Save or Save As, if strPathName is not empty, it is exist in the computer, this is a save action
            String strPathName = GetPathName();


            if (strPathName.CompareTo(UNTITLED_FILE_NAME) == 0)
            {
                // this is a new file 

                // return save as result
                return SaveAs();
            }
            // is this a new file?
            strPathName.Trim();
            //保存测量项目文件 .prj
            XmlDocument doc = new XmlDocument();
            doc.Load(strPathName);
            doc.RemoveAll();
            //添加xml文件头申明
            XmlDeclaration xmldecl = doc.CreateXmlDeclaration("1.0", "UTF-8", null);
            doc.AppendChild(xmldecl);
            XmlElement rootNode = doc.CreateElement("XMLData");
            doc.AppendChild(rootNode);

            Serialize(true, doc, rootNode);
            try
            {
                doc.Save(strPathName);
            }
            catch
            {
                return false;
            }

            // set file modify flag
            SetModify(false);

            // Ok, return TRUE
            return true;
        }

        public bool SaveAs()
        {
            // get file name
            String strPathName = "";
            // file open dialog
            SaveFileDialog saveFileDialog = new SaveFileDialog();
            saveFileDialog.FileName = m_strPathName.Split('\\')[m_strPathName.Split('\\').Length - 1];
            saveFileDialog.Filter = "Directory (*.*)|*.*";
            saveFileDialog.AddExtension = false;
            if (saveFileDialog.ShowDialog() != DialogResult.OK)
            {
                return false;

            }
            // get file pathname
            strPathName = saveFileDialog.FileName;
            string DirectoryName = Path.GetDirectoryName(strPathName);
            try
            {
                Directory.CreateDirectory(strPathName);
            }
            catch
            {
                MessageBox.Show("CreateDirectoryFailed!");
                return false;
            }
            strPathName += "\\" + Path.GetFileNameWithoutExtension(strPathName) + ".prj";
            //保存测量项目文件 .prj
            XmlDocument doc = new XmlDocument();
            //添加xml文件头申明
            XmlDeclaration xmldecl = doc.CreateXmlDeclaration("1.0", "UTF-8", null);
            doc.AppendChild(xmldecl);
            XmlElement rootNode = doc.CreateElement("XMLData");
            doc.AppendChild(rootNode);

            Serialize(true, doc, rootNode);
            try
            {
                doc.Save(strPathName);
            }
            catch
            {
                return false;
            }
            // set file modify flag
            m_bModify = false;

            // Set project Path
            SetPathName(strPathName);

            // Ok, return TRUE
            return true;
        }



        // SEM stage data
        public CSEMStageData GetSEMStageData() { return m_pSEMStageData; }

        // SEM stage data
        public void SetSEMStageData(CSEMStageData a_pCSEMStageData)
        {
            m_pSEMStageData = a_pCSEMStageData;
        }

        // stage
        public CSampleHolder GetStageHolder() { return m_pStage; }
        public void SetStage(CSampleHolder a_pStage)
        {
            m_pStage = new CSampleHolder(a_pStage);
        }

        // samples list
        public List<COTSSample> GetSampleList() { return m_listSamples; }



        public COTSSample GetSampleByIndex(int a_nIndex)
        {
            // safe check
            if (a_nIndex < 0 || a_nIndex >= (int)m_listSamples.Count)
            {
                // invalid sample id

                return null;
            }
            // get the matching sample
            COTSSample pSample = m_listSamples[a_nIndex];

            // return the sample
            return pSample;
        }

        public COTSSample GetSampleByName(String a_strSampleName)
        {

            bool Isfind = false;
            COTSSample pOTSSample = null;
            for (int itr = 0; itr < m_listSamples.Count; itr++)
            {
                if (m_listSamples[itr].GetName() == a_strSampleName)
                {
                    pOTSSample = m_listSamples[itr];
                   
                    Isfind = true;
                }
            }

            if (Isfind)
            {
                return pOTSSample;
            }

            return m_listSamples[0];

        }

        public void AddSample(COTSSample pSample)
        {



            // add the new sample into the samples list
            m_listSamples.Add(pSample);

            // set the project file modified.
            SetModify();

            // set the new as working sample
            m_nWorkingSampeIndex = (int)m_listSamples.Count - 1;

        }



        public bool DeleteSampleByIndex(int a_nIndex)
        {
            // check the index
            if (a_nIndex < 0 || a_nIndex >= (int)m_listSamples.Count)
            {
                // invalid input sample index

                return true;
            }

            // calculate new working sample index
            int nNewWorkingSampeIndex;
            if (a_nIndex < m_nWorkingSampeIndex)
            {
                nNewWorkingSampeIndex = m_nWorkingSampeIndex - 1;
            }
            else if (a_nIndex > m_nWorkingSampeIndex)
            {
                nNewWorkingSampeIndex = m_nWorkingSampeIndex;
            }
            else
            {
                // deleting working sample.
                if (a_nIndex == (int)m_listSamples.Count - 1)
                {
                    // this is the last sample, select the above sample as working sample 
                    // if this is only sample in the list working sample index will be -1;
                    nNewWorkingSampeIndex = m_nWorkingSampeIndex - 1;
                }
                else
                {
                    // select next sample as working sample
                    nNewWorkingSampeIndex = m_nWorkingSampeIndex;
                }
            }

            // delete the sample 

            for (int i = m_listSamples.Count - 1; i >= 0; i--)
            {
                if (i == a_nIndex)
                {
                    var sam = m_listSamples[i];
                    sam.GetMsrStatus().ClearCompletedFieldsInfo();
                    sam.GetMsrStatus().ClearCompletedFieldsInfo();
                    sam.ClearFields();
                    sam.GetMsrStatus().SetStatus(OTS_MSR_SAMPLE_STATUS.UNMEASURED);
                    m_listSamples.Remove(m_listSamples[i]);
                    break;
                }
            }

            // the file is modified.
            SetModify();

            // reset working sample index
            m_nWorkingSampeIndex = nNewWorkingSampeIndex;

            // ok, return TRUE
            return true;
        }


        public bool DeleteSampleByName(String a_strSampleName)
        {
            // check input sample name
            a_strSampleName.Trim();
            if (a_strSampleName == "")
            {
                // input sample name is empty

                return false;
            }

            // go through sample list
            int nIndex = 0;
            foreach (var pSample in m_listSamples)
            {
                // return TRUE if this is not an exclude sample and its name is same with input
                String strSampleName = pSample.GetName();
                if (strSampleName.CompareTo(a_strSampleName) == 0)
                {
                    // find the sample, return deleting result
                    return DeleteSampleByIndex(nIndex);
                }

                ++nIndex;
            }

            // can't find the sample in the samples list, return FALSE
            return false;
        }


        public COTSSample GetWorkingSample()
        {

            return GetSampleByIndex(m_nWorkingSampeIndex);
        }



        public bool SetWorkingSampleByIndex(int a_nIndex)
        {
            // special treatment
            if (a_nIndex == -1 && m_listSamples.Count == 0)
            {
                m_nWorkingSampeIndex = -1;
                return true;
            }

            // check if the working sample index
            if (0 > a_nIndex || a_nIndex >= (int)m_listSamples.Count)
            {
                // invalid sample index
                return false;
            }

            m_nWorkingSampeIndex = a_nIndex;
            return true;
        }

        public bool SetWorkingSampleByName(String a_pSampleName)
        {
            // check input sample name
            a_pSampleName.Trim();
            if (a_pSampleName == "")
            {
                // input sample name is empty

                return false;
            }

            // go through sample list
            int nIndex = 0;
            foreach (var pSample in m_listSamples)
            {
                // return TRUE if this is not an exclude sample and its name is same with input
                String strSampleName = pSample.GetName();
                if (strSampleName.CompareTo(a_pSampleName) == 0)
                {
                    // find the sample, return deleting result
                    return SetWorkingSampleByIndex(nIndex);
                }

                ++nIndex;
            }

            // failed to find the named sample return FALSE
            return false;
        }

     

        // get modify flag
        public bool IsModified() { return m_bModify; }

        // file name
        public String GetFileName()
        {
            // make a copy of file path name
            String strPathName = m_strPathName;

            // is this a new file?           
            if (strPathName.CompareTo(UNTITLED_FILE_NAME) == 0)
            {
                return strPathName;
            }

            // get file name
            String strFileName = GetFileNameWithoutExtension(strPathName);


            // return file name
            return strFileName;
        }

        // get file name without extension
        public String GetFileNameWithoutExtension(String a_strPathName)
        {
            string str = "";
            str = Path.GetFileNameWithoutExtension(a_strPathName);
            return str;
        }

        // if the new sample name can be used.
        public bool IsValidSampleName(String a_sName)
        {
            foreach (var pSample in m_listSamples)
            {


                String sSampleName = pSample.GetName();
                if (a_sName.Equals(sSampleName))
                {


                    return false;

                }
            }

            return true;
        }



        static String FindFile(String filename, String path)
        {
            if (Directory.Exists(path))
            {
                if (File.Exists(path + filename))
                    return path + filename;
                String[] directorys = Directory.GetDirectories(path);
                foreach (String d in directorys)
                {
                    String p = FindFile(filename, d);
                    if (p != null)
                        return p;
                }
            }
            return null;
        }

        // calculate measurement area
        public CDomain CalculateMsrArea(CHole a_pHole)
        {
            CDomain pMsrArea = new CDomain(a_pHole.GetShape(), a_pHole.GetDomainRect());
          
            // measurement area should smaller than the sample hole
            RectangleF rectMsrArea = pMsrArea.GetDomainRect();
            float nWidth = rectMsrArea.Width;
            float nHeight = rectMsrArea.Height;
            float nDeflateX = CalculateDeflateValue(nWidth);
            float nDeflateY = CalculateDeflateValue(nHeight);
            rectMsrArea.Offset(nDeflateX, nDeflateY);
            pMsrArea.SetDomainRect(rectMsrArea);

            // return measurement area
            return pMsrArea;
        }

        // calculate deflate value
        public float CalculateDeflateValue(float a_nWitchOrHeight)
        {
            const long LENGTH_THRESHOLD = 150000;
            const long LENGTH_THRESHOLD_MIN = 10000;
            const int EDGE = 1000;
            const int EDGE_MIN = 500;
            // deflate 1000 if width or height is greater than 15000
            if (a_nWitchOrHeight >= LENGTH_THRESHOLD)
            {
                return EDGE;
            }
            // deflate 500 if width or height is greater than 15000
            else if (a_nWitchOrHeight >= LENGTH_THRESHOLD_MIN)
            {
                return EDGE_MIN;
            }

            // otherwise, no deflate
            return 0;
        }


        //合并后新添加的需要的方法
        public void SetGenParam(COTSCommonParam GenParam) { m_CommonParam = GenParam; }
        public COTSCommonParam GetGenParam() { return m_CommonParam; }

        public bool Reclassify(bool IgnoreUserModify)
        {

            string strFilePath = FileHelper.GetFolderName(m_strPathName);
            if (strFilePath == null)
            {
                return false;
            }

            foreach (var spl in m_listSamples)
            {

                //get the parameter MsrParam object
                CSampleParam pMsrParam = spl.GetMsrParams();
                string stdFileName = pMsrParam.GetSTDName();
                if (!stdFileName.Contains(".db"))
                {
                    stdFileName += ".db";
                }

                string filename = strFilePath + "\\" + spl.GetName() + "\\" + spl.GetName() + ".rst";

                XmlDocument doc = new XmlDocument();
                doc.Load(filename);

                XmlNode root = doc.SelectSingleNode("XMLData");
                var members = root.SelectNodes("Member");
                foreach (XmlNode member1 in members)
                {
                    if (member1.Attributes["RegName"].Value == "Sample")
                    {
                        var paramNode = member1.SelectNodes("Member");
                        foreach (XmlNode member2 in paramNode)
                        {
                            if (member2.Attributes["RegName"].Value == "MsrParams")
                            {
                                ((XmlElement)member2).SetAttribute("STDName", stdFileName);
                            }
                        }
                    }
                }

                doc.Save(filename);//save the new std db name
                foreach (var fld in spl.GetFieldsData())
                {
                    
                        if (IgnoreUserModify)
                        {
                            foreach (var part in fld.GetListAnalysisParticles())
                            {
                                if (part.GetClassifyId() < USR_MODIFY_CLASSIFYID_BASE)
                                {
                                    part.SetType((int)OTS_PARTICLE_TYPE.NOT_IDENTIFIED);
                                    part.SetClassifyId((int)OTS_PARTICLE_TYPE.NOT_IDENTIFIED);
                                    part.SetTypeName("Not Identified");
                                    part.SetTypeColor("#000000");

                                }
                                
                            }
                        }
                        else
                        {
                            foreach (var part in fld.GetListAnalysisParticles())
                            {
                                part.SetType((int)OTS_PARTICLE_TYPE.NOT_IDENTIFIED);
                                part.SetClassifyId((int)OTS_PARTICLE_TYPE.NOT_IDENTIFIED);
                                part.SetTypeName("Not Identified");
                                part.SetTypeColor("#000000");

                            }
                        }

                   
                }
                var analysisparts = new List<COTSParticleClr>();
                var m_classifyEngine = new CClassifyEngine();
                if (SystemTypeId == OTS_SysType_ID.IncA|| SystemTypeId == OTS_SysType_ID.SteelMineral)
                {
                    //get the steel technology parameter
                    STEEL_TECHNOLOGY steelTech = pMsrParam.GetSteelTechnology();

                    if (spl.GetMsrParams().GetEngineType() == OTS_CLASSIFY_ENGINE_TYPE.InclutionPlusExpressionParse)
                    {
                        if (stdFileName != "NoSTDDB.db")
                        {
                            foreach (var fld in spl.GetFieldsData())
                            {
                                foreach (var part in fld.GetListAnalysisParticles())
                                {
                                    IClassifyEngine partEngine = m_classifyEngine.GetExpressionClassifyEngine(stdFileName);
                                    if (IsLowCounts(part))
                                    {
                                        continue;

                                    }
                                    if (!partEngine.ClassifyByExpression(part))
                                    {

                                        NLog.LogManager.GetCurrentClassLogger().Error("1 failed to classify!" + "Particle Engine");
                                    }


                                    if (part.GetType() == (int)OTS_PARTICLE_TYPE.NOT_IDENTIFIED)
                                    {

                                        IClassifyEngine incAEngine = m_classifyEngine.GetIncClassifyEngine();
                                        if (!incAEngine.ClassifyIncA(part, (int)steelTech))
                                        {

                                            NLog.LogManager.GetCurrentClassLogger().Error("2 failed to classify!" + "IncA Engine");
                                        }

                                    }

                                }
                                analysisparts.AddRange(fld.GetListAnalysisParticles());
                            }
                        }


                    }
                    else if (spl.GetMsrParams().GetEngineType() == OTS_CLASSIFY_ENGINE_TYPE.ExpressionParse)
                    {

                        if (stdFileName != "NoSTDDB.db")
                        {
                            foreach (var fld in spl.GetFieldsData())
                            {
                                foreach (var part in fld.GetListAnalysisParticles())
                                {
                                    if (IsLowCounts(part))
                                    {
                                        continue;

                                    }
                                    IClassifyEngine engine = m_classifyEngine.GetExpressionClassifyEngine(stdFileName);
                                    if (!engine.ClassifyByExpression(part))
                                    {

                                        NLog.LogManager.GetCurrentClassLogger().Error("3 failed to classify!" + "Particle Engine");
                                    }
                                }
                                analysisparts.AddRange(fld.GetListAnalysisParticles());
                            }
                        }
                    }
                    else if (spl.GetMsrParams().GetEngineType() == OTS_CLASSIFY_ENGINE_TYPE.InclustionEngine)
                    {
                        foreach (var fld in spl.GetFieldsData())
                        {
                            foreach (var part in fld.GetListAnalysisParticles())
                            {
                                if (IsLowCounts(part))
                                {
                                    continue;

                                }
                                IClassifyEngine incAEngine = m_classifyEngine.GetIncClassifyEngine();
                                if (!incAEngine.ClassifyIncA(part, (int)steelTech))
                                {

                                    NLog.LogManager.GetCurrentClassLogger().Error("2 failed to classify!" + "IncA Engine");
                                }
                            }
                            analysisparts.AddRange(fld.GetListAnalysisParticles());

                        }


                    } 
                    else if (spl.GetMsrParams().GetEngineType() == OTS_CLASSIFY_ENGINE_TYPE.SpectrumMatch)
                    {
                        foreach (var fld in spl.GetFieldsData())
                        {
                            foreach (var part in fld.GetListAnalysisParticles())
                            {
                                if (IsLowCounts(part))
                                {
                                    continue;

                                }
                                IClassifyEngine spectrumEng = m_classifyEngine.GetSpectrumCompareEngine(stdFileName);
                                if (!spectrumEng.ClassifyBySpectrum(part))
                                {

                                    NLog.LogManager.GetCurrentClassLogger().Error("2 failed to classify!" + "IncA Engine");
                                }
                            }
                            analysisparts.AddRange(fld.GetListAnalysisParticles());
                        }

                    }

                }
                else if (SystemTypeId == OTS_SysType_ID.TCCleannessA|| SystemTypeId == OTS_SysType_ID.BatteryCleannessA)
                {
                    if (stdFileName != "NoSTDDB.db")
                    {
                        foreach (var fld in spl.GetFieldsData())
                        {
                            foreach (var part in fld.GetListAnalysisParticles())
                            {
                                if (IsLowCounts(part))
                                {
                                    continue;

                                }
                                IClassifyEngine engine = m_classifyEngine.GetExpressionClassifyEngine(stdFileName);
                                if (!engine.ClassifyByExpression(part))
                                {

                                    NLog.LogManager.GetCurrentClassLogger().Error("3 failed to classify!" + "Particle Engine");
                                }
                            }
                            analysisparts.AddRange(fld.GetListAnalysisParticles());

                        }
                    }

                }
                string strFieldFileSubFolder = strFilePath + "\\" + spl.GetName() + "\\" + SMPL_MSR_RESULT_FIELDS_FILE_SUBFOLDER;

                string strIncAFilename = strFieldFileSubFolder + "\\" + SMPL_MSR_RESULT_INCLUSION_FILE;
                CIncAFileMgr pIncAFileMgr = new CIncAFileMgr(strIncAFilename);


                pIncAFileMgr.UpdateParticleList(analysisparts);

                if (stdFileName.ToLower() != "nostddb.db")
                {
                    try
                    {
                        string userdBpath = Application.StartupPath + "\\Config\\SysData\\" + stdFileName;
                        File.Copy(userdBpath, strFilePath + "\\" + spl.GetName() + "\\" + stdFileName, true);
                    }
                    catch (Exception ex)
                    {
                        MessageBox.Show(stdFileName + " copy failed:" + ex.ToString());
                        return false;
                    }
                }
            }


            return true;




        }

        private bool IsLowCounts(COTSParticleClr particle)
        {
            COTSXRayParam pXRayParam = this.GetWorkingSample().GetMsrParams().GetXRayParam();

            if (pXRayParam.GetUsingXray() == true)
            {
                var thecount = particle.GetXray().GetTotalCount();
                var expect = pXRayParam.GetAnalyExpCount();


                if (thecount < expect)
                {

                    particle.SetType((int)OTS_PARTICLE_TYPE.LOW_COUNT);//4 represent "lowcount"
                    particle.SetClassifyId((int)OTS_PARTICLE_TYPE.LOW_COUNT);//4 represent "lowcount"
                    particle.SetTypeColor("#000000");
                    particle.SetTypeName("LowCounts");
                    return true;
                }
            }
            return false;
        }

        public void DeleteWorkingSampleFieldDataByFieldNo(int fieldNo)
        {
            string strFilePath = FileHelper.GetFolderName(m_strPathName);
            string strFieldFileSubFolder = strFilePath + "\\" + GetWorkingSample().GetName() + "\\" + SMPL_MSR_RESULT_FIELDS_FILE_SUBFOLDER;

            string strIncAFilename = strFieldFileSubFolder + "\\" + SMPL_MSR_RESULT_INCLUSION_FILE;
            CIncAFileMgr pIncAFileMgr = new CIncAFileMgr(strIncAFilename);
            var fldDB = pIncAFileMgr.GetFieldDB();
            var incADataDb = pIncAFileMgr.GetIncADB();
            var segmentDb = pIncAFileMgr.GetSegmentDB();
            var posxrayinfodb = pIncAFileMgr.GetPosXrayDBMgr().GetXrayInfoDB();
            var posxraydatadb = pIncAFileMgr.GetPosXrayDBMgr().GetXrayDataDB();
            var elechemistrydb = pIncAFileMgr.GetPosXrayDBMgr().GetElementChemistryDB();
            fldDB.DeleteDataByFieldNo (fieldNo);
            incADataDb.DeleteDataByFieldNo(fieldNo);
            segmentDb.DeleteDataByFieldNo(fieldNo);
            posxrayinfodb.DeleteDataByFieldNo(fieldNo);
            posxraydatadb.DeleteDataByFieldNo(fieldNo);
            elechemistrydb.DeleteDataByFieldNo(fieldNo);


        }

        /// <summary>
        /// 设置样品中对象属性 赋值
        /// </summary>
        /// <param name="pSample"></param>
        /// <param name="poMsrParams"></param>
        /// <returns></returns>


        void Serialize(bool isStoring, XmlDocument classDoc, XmlNode rootNode)
        {

            // copy data over
            if (m_pSEMStageData == null)
            {
                m_pSEMStageData = new CSEMStageData();
            }
            if (m_pStage == null)
            {
                m_pStage = new CSampleHolder();
            }
            xInt xProjMgrFileMark = new xInt();
            xString xProjMgrFileVersion = new xString();
            xString xstrPathName = new xString();
            xString xSystype = new xString();
            //Collection<CHoleBSEImg> xholeBSEImgs = new Collection<CHoleBSEImg>();
            Collection<COTSSample> xsamples = new Collection<COTSSample>();
            Slo slo = new Slo();

            slo.Register("ProjMgrFileMark", xProjMgrFileMark);
            slo.Register("ProjMgrFileVersion", xProjMgrFileVersion);
            slo.Register("strPathName", xstrPathName);
            slo.Register("SysType", xSystype);
            slo.Register("SEMStageData", m_pSEMStageData);
            slo.Register("Stage", m_pStage);
            //slo.Register("HoleBSEImg", xholeBSEImgs);
            slo.Register("Samples", xsamples);

            if (isStoring)
            {
                xProjMgrFileMark.AssignValue(0);
                xProjMgrFileVersion.AssignValue("");
                xSystype.AssignValue(systemTypeId.ToString());
                xstrPathName.AssignValue(m_strPathName);
                //xholeBSEImgs.Clear();

                xsamples.Clear();
                foreach (var sample in m_listSamples)
                {
                    xsamples.addItem(sample);
                }
                slo.Serialize(true, classDoc, rootNode);

            }
            else
            {
                slo.Serialize(false, classDoc, rootNode);
                m_strPathName = xstrPathName.value();
                //m_listHoleBSEImg.Clear();

                m_listSamples.Clear();
                for (int i = 0; i < (int)xsamples.size(); i++)
                {
                    m_listSamples.Add(xsamples.getItem(i));
                }
                if (xSystype.value() == "IncA")
                {
                    systemTypeId = otsdataconst.OTS_SysType_ID.IncA;
                }
                else if(xSystype.value() == "TCCleannessA")
                {
                    systemTypeId = otsdataconst.OTS_SysType_ID.TCCleannessA;
                }
                else if (xSystype.value() == "BatteryCleannessA")
                {
                    systemTypeId = otsdataconst.OTS_SysType_ID.BatteryCleannessA;
                }
                else if (xSystype.value() == "SteelMineral")
                {
                    systemTypeId = otsdataconst.OTS_SysType_ID.SteelMineral;
                }
            }

        }
    }
}