private List<string> GenerateArtifactMessage(cPlate PlateToProcess, int CurrentDescSel)
{
int NumWell = PlateToProcess.GetNumberOfActiveWells();
List<string> Messages = new List<string>();
// Normality Test
List<double> CurrentDesc = new List<double>();
for (int IdxValue = 0; IdxValue < CompleteScreening.Columns; IdxValue++)
for (int IdxValue0 = 0; IdxValue0 < CompleteScreening.Rows; IdxValue0++)
{
cWell TmpWell = PlateToProcess.GetWell(IdxValue, IdxValue0, true);
if (TmpWell != null)
CurrentDesc.Add(TmpWell.ListDescriptors[CurrentDescSel].GetValue());
}
CurrentDesc.Sort();
if ((std(CurrentDesc.ToArray()) == 0))
{
//Messages.Add(/*PlateToProcess.Name + "\n \n*/"No systematic error detected !");
return null;
}
double Anderson_DarlingValue = Anderson_Darling(CurrentDesc.ToArray());
Messages.Add(string.Format("{0:0.###}", Anderson_DarlingValue));
// now clustering
if (!KMeans((int)GlobalInfo.OptionsWindow.numericUpDownSystErrorIdentKMeansClasses.Value, PlateToProcess, CurrentDescSel))
{
List<string> ListMessageError = new List<string>();
ListMessageError.Add("K-Means Error");
return ListMessageError;
}
// and finally classification
int MinObjectsNumber = (NumWell * (int)GlobalInfo.OptionsWindow.numericUpDownSystemMinWellRatio.Value) / 100;
List<string> ListMessage = ComputePlateBasedClassification((int)GlobalInfo.OptionsWindow.numericUpDownSystErrorIdentKMeansClasses.Value, MinObjectsNumber, PlateToProcess);
for (int i = 0; i < ListMessage.Count; i++)
Messages.Add(ListMessage[i]);
return Messages;
}
/// <summary>
/// K-Mean for Systematic error Identification
/// </summary>
/// <param name="Classes"></param>
/// <param name="PlateToProcess"></param>
/// <param name="Desc"></param>
/// <returns></returns>
private bool KMeans(int Classes, cPlate PlateToProcess, int Desc)
{
int NumWell = PlateToProcess.GetNumberOfActiveWells();
int Numdesc = cGlobalInfo.CurrentScreening.GetNumberOfActiveDescriptor();
double[,] DataForKMeans = new double[NumWell, Numdesc];
List<double> CurrentDesc = new List<double>();
double[] NormDesc = null;
for (int IdxValue = 0; IdxValue < cGlobalInfo.CurrentScreening.Columns; IdxValue++)
for (int IdxValue0 = 0; IdxValue0 < cGlobalInfo.CurrentScreening.Rows; IdxValue0++)
{
cWell TmpWell = PlateToProcess.GetWell(IdxValue, IdxValue0, true);
if (TmpWell != null)
CurrentDesc.Add(TmpWell.ListSignatures[Desc].GetValue());
}
if (CurrentDesc.Count == 0) return false;
NormDesc = MeanCenteringStdStandarization(CurrentDesc.ToArray());
for (int row = 0; row < NumWell; row++)
DataForKMeans[row, 0] = NormDesc[row];
int Info;
double[,] CenterPos;
int[] ClusterIndx;
try
{
alglib.kmeansgenerate(DataForKMeans, NumWell, Numdesc, Classes, 10, out Info, out CenterPos, out ClusterIndx);
int Idx = 0;
for (int IdxValue = 0; IdxValue < cGlobalInfo.CurrentScreening.Columns; IdxValue++)
for (int IdxValue0 = 0; IdxValue0 < cGlobalInfo.CurrentScreening.Rows; IdxValue0++)
{
cWell TmpWell = PlateToProcess.GetWell(IdxValue, IdxValue0, true);
if (TmpWell != null)
{
if (ClusterIndx[Idx] == -1)
TmpWell.SetAsNoneSelected();
else
TmpWell.SetClass(ClusterIndx[Idx]);
Idx++;
}
}
}
catch
{
MessageBox.Show("Check the data validity", "Error", MessageBoxButtons.OK, MessageBoxIcon.Error);
return false;
}
return true;
}
/// <summary>
/// K - Mean clustering procedure
/// </summary>
/// <param name="Classes"></param>
/// <param name="PlateToProcess"></param>
/// <returns></returns>
private bool KMeans(int Classes, cPlate PlateToProcess)
{
int NumWell = PlateToProcess.GetNumberOfActiveWells();
int Numdesc = CompleteScreening.GetNumberOfActiveDescriptor();
double[,] DataForKMeans = new double[NumWell, Numdesc];
int IdxDesc = 0;
for (int desc = 0; desc < CompleteScreening.ListDescriptors.Count; desc++)
{
if (CompleteScreening.ListDescriptors[desc].IsActive() == false) continue;
List<double> CurrentDesc = new List<double>();
double[] NormDesc = null;
for (int IdxValue = 0; IdxValue < CompleteScreening.Columns; IdxValue++)
for (int IdxValue0 = 0; IdxValue0 < CompleteScreening.Rows; IdxValue0++)
{
cWell TmpWell = PlateToProcess.GetWell(IdxValue, IdxValue0, true);
if (TmpWell != null)
CurrentDesc.Add(TmpWell.ListDescriptors[desc].GetValue());
}
if (CurrentDesc.Count == 0) continue;
NormDesc = MeanCenteringStdStandarization(CurrentDesc.ToArray());
for (int row = 0; row < NumWell; row++)
DataForKMeans[row, IdxDesc] = NormDesc[row];
IdxDesc++;
}
int Info;
double[,] CenterPos;
int[] ClusterIndx;
try
{
alglib.kmeansgenerate(DataForKMeans, NumWell, Numdesc, Classes, 10, out Info, out CenterPos, out ClusterIndx);
int Idx = 0;
for (int IdxValue = 0; IdxValue < CompleteScreening.Columns; IdxValue++)
for (int IdxValue0 = 0; IdxValue0 < CompleteScreening.Rows; IdxValue0++)
{
cWell TmpWell = PlateToProcess.GetWell(IdxValue, IdxValue0, true);
if (TmpWell != null)
{
if (ClusterIndx[Idx] == -1)
TmpWell.SetAsNoneSelected();
else
TmpWell.SetClass(ClusterIndx[Idx]);
Idx++;
}
}
}
catch
{
richTextBoxInfoClustering.AppendText("\nPlate: " + PlateToProcess.Name + " skipped: data corrupted (check your descriptor data validity).");
//MessageBox.Show("Check the data validity", "Error", MessageBoxButtons.OK, MessageBoxIcon.Error);
return false;
}
return true;
}
