private void testMultiScatterToolStripMenuItem_Click(object sender, EventArgs e)
{
//V1D.Chart.LabelAxisX = "Well Index";
//V1D.Chart.LabelAxisY = CompleteScreening.ListDescriptors[CompleteScreening.ListDescriptors.CurrentSelectedDescriptor].GetName();
//V1D.Chart.BackgroundColor = Color.LightYellow;
//V1D.Chart.IsXAxis = true;
cGUI_ListClasses GUI_ListClasses = new cGUI_ListClasses();
GUI_ListClasses.IsCheckBoxes = true;
GUI_ListClasses.IsSelectAll = true;
if (GUI_ListClasses.Run().IsSucceed == false) return;
cExtendedList ListClassSelected = GUI_ListClasses.GetOutPut()[0];
if (ListClassSelected.Sum() < 1)
{
MessageBox.Show("At least one classe has to be selected.", "Error !", MessageBoxButtons.OK, MessageBoxIcon.Error);
return;
}
cDesignerSplitter CDC = new cDesignerSplitter();
cListWells ListWellsToProcess = new cListWells(null);
//foreach (cPlate TmpPlate in CompleteScreening.ListPlatesActive)
foreach (cWell item in cGlobalInfo.CurrentScreening.GetCurrentDisplayPlate().ListActiveWells)
if (item.GetCurrentClassIdx() != -1)
if (ListClassSelected[item.GetCurrentClassIdx()] == 1) ListWellsToProcess.Add(item);
cExtendedTable DataFromPlate = new cExtendedTable(ListWellsToProcess, true);
DataFromPlate.Name = cGlobalInfo.CurrentScreening.GetCurrentDisplayPlate().GetName();
//if (ProcessModeCurrentPlateOnlyToolStripMenuItem.Checked)
{
for (int IdxDesc0 = 0; IdxDesc0 < DataFromPlate.Count; IdxDesc0++)
for (int IdxDesc1 = 1; IdxDesc1 < DataFromPlate.Count; IdxDesc1++)
{
cViewer2DScatterPoint V1D = new cViewer2DScatterPoint();
V1D.Chart.CurrentTitle.Tag = cGlobalInfo.CurrentScreening.GetCurrentDisplayPlate();
V1D.Chart.IdxDesc0 = IdxDesc0;
V1D.Chart.IdxDesc1 = IdxDesc1;
V1D.SetInputData(DataFromPlate);
V1D.Run();
V1D.Chart.Width = 0;
V1D.Chart.Height = 0;
cDesignerSinglePanel Designer0 = new cDesignerSinglePanel();
Designer0.SetInputData(V1D.GetOutPut());
Designer0.Run();
CDC.SetInputData(Designer0.GetOutPut());
}
}
CDC.Run();
cDisplayToWindow Disp0 = new cDisplayToWindow();
Disp0.SetInputData(CDC.GetOutPut());
Disp0.Title = "2D Scatter points graph - wells.";
if (!Disp0.Run().IsSucceed) return;
Disp0.Display();
}
private void ToolStripMenuItem_ZFactor(object sender, EventArgs e)
{
cGUI_2ClassesSelection GUI_ListClasses = new cGUI_2ClassesSelection();
if (GUI_ListClasses.Run(this.GlobalInfo).IsSucceed == false) return;
cExtendedTable ListClassSelected = GUI_ListClasses.GetOutPut();
int IdxClassNeg = -1;
int IdxClassPos = -1;
for (int IdxC = 0; IdxC < ListClassSelected[0].Count; IdxC++)
{
if (ListClassSelected[0][IdxC] == 1) IdxClassNeg = IdxC;
if (ListClassSelected[1][IdxC] == 1) IdxClassPos = IdxC;
}
string SubTitle = "Z-Factor";
cListWells ListWellsToProcess1 = new cListWells(null);
cListWells ListWellsToProcess2 = new cListWells(null);
foreach (cWell item in cGlobalInfo.ListSelectedWell)
{
if (item.GetCurrentClassIdx() != -1)
{
if (ListClassSelected[0][item.GetCurrentClassIdx()] == 1)
ListWellsToProcess1.Add(item);
if (ListClassSelected[1][item.GetCurrentClassIdx()] == 1)
ListWellsToProcess2.Add(item);
}
}
cExtendedTable NewTable1 = new cExtendedTable(ListWellsToProcess1, true);
cExtendedTable NewTable2 = new cExtendedTable(ListWellsToProcess2, true);
if ((NewTable1.Count == 0) || (NewTable1[0].Count < 2) || (NewTable2.Count == 0) || (NewTable2[0].Count < 2))
{
if (ProcessModeCurrentPlateOnlyToolStripMenuItem.Checked)
{
MessageBox.Show("Insufficient number of control wells", "Error", MessageBoxButtons.OK, MessageBoxIcon.Error);
return;
}
}
cExtendedList ListZ = new cExtendedList();
List<cDescriptorType> ListDescForZFactor = new List<cDescriptorType>();
List<string> ListNames = new List<string>();
int RealIdx = 0;
for (int IDxDesc = 0; IDxDesc < cGlobalInfo.CurrentScreening.ListDescriptors.Count; IDxDesc++)
{
if (!cGlobalInfo.CurrentScreening.ListDescriptors[IDxDesc].IsActive()) continue;
cExtendedTable TableForZ = new cExtendedTable();
TableForZ.Add(NewTable1[RealIdx]);
TableForZ.Add(NewTable2[RealIdx]);
RealIdx++;
cZFactor ZF = new cZFactor();
ZF.SetInputData(TableForZ);
ZF.IsRobust = _QCZRobustItem.Checked;
ZF.Run();
ListZ.Add(ZF.GetOutPut()[0][1]);
ListDescForZFactor.Add(cGlobalInfo.CurrentScreening.ListDescriptors[IDxDesc]);
}
cExtendedTable ET = new cExtendedTable(new cExtendedTable(ListZ));
ET[0].ListTags = new List<object>();
ET[0].ListTags.AddRange(ListDescForZFactor);
ET.Name = SubTitle + " - " + cGlobalInfo.ListWellClasses[IdxClassNeg].Name + " (" + NewTable1[0].Count + " wells) vs. " + cGlobalInfo.ListWellClasses[IdxClassPos].Name + " (" + NewTable2[0].Count + " wells)";
ET[0].Name = ET.Name;
cSort S = new cSort();
S.SetInputData(ET);
S.ColumnIndexForSorting = 0;
S.Run();
cViewerGraph1D VG1 = new cViewerGraph1D();
VG1.SetInputData(S.GetOutPut());
VG1.Chart.LabelAxisY = SubTitle;
VG1.Chart.LabelAxisX = "Descriptor";
VG1.Chart.IsZoomableX = true;
VG1.Chart.IsBar = true;
VG1.Chart.IsBorder = true;
VG1.Chart.IsDisplayValues = true;
VG1.Chart.IsShadow = true;
VG1.Chart.MarkerSize = 4;
VG1.Chart.DefaultAxisYMax = new cExtendedList();
VG1.Chart.DefaultAxisYMax.Add(1);
//VG1.Title = TmpPlate.Name;
Classes.Base_Classes.General.cLineHorizontalForGraph VLZ05 = new Classes.Base_Classes.General.cLineHorizontalForGraph(.5);
VLZ05.IsAllowMoving = true;
VG1.Chart.ListHorizontalLines.Add(VLZ05);
VG1.Run();
cDesignerSplitter DS = new cDesignerSplitter();
DS.Orientation = Orientation.Vertical;
DS.SetInputData(VG1.GetOutPut());
cSort S1 = new cSort();
S1.SetInputData(ET);
S1.ColumnIndexForSorting = 0;
S1.IsAscending = false;
S1.Run();
cViewerTable VT = new cViewerTable();
VT.SetInputData(S1.GetOutPut());
VT.Run();
DS.SetInputData(VT.GetOutPut());
DS.Run();
cDisplayToWindow CDW = new cDisplayToWindow();
CDW.SetInputData(DS.GetOutPut());//VG1.GetOutPut());
CDW.Title = "List Wells - Z Factor";
CDW.Run();
CDW.Display();
}
private void zScoreToolStripMenuItem_Click(object sender, EventArgs e)
{
#region obsolete
//List<double> Pos = new List<double>();
//List<double> Neg = new List<double>();
//List<cSimpleSignature> ZFactorList = new List<cSimpleSignature>();
//int NumDesc = CompleteScreening.ListDescriptors.Count;
//cWell TempWell;
//// loop on all the desciptors
//for (int Desc = 0; Desc < NumDesc; Desc++)
//{
// Pos.Clear();
// Neg.Clear();
// if (CompleteScreening.ListDescriptors[Desc].IsActive() == false) continue;
// for (int row = 0; row < CompleteScreening.Rows; row++)
// for (int col = 0; col < CompleteScreening.Columns; col++)
// {
// TempWell = CompleteScreening.GetCurrentDisplayPlate().GetWell(col, row, true);
// if (TempWell == null) continue;
// else
// {
// if (TempWell.GetClassIdx() == 0)
// Pos.Add(TempWell.ListDescriptors[Desc].GetValue());
// if (TempWell.GetClassIdx() == 1)
// Neg.Add(TempWell.ListDescriptors[Desc].GetValue());
// }
// }
// if (Pos.Count < 3)
// {
// MessageBox.Show("No or not enough positive controls !", "Warning", MessageBoxButtons.OK, MessageBoxIcon.Exclamation);
// return;
// }
// if (Neg.Count < 3)
// {
// MessageBox.Show("No or not enough negative controls !", "Warning", MessageBoxButtons.OK, MessageBoxIcon.Exclamation);
// return;
// }
// double ZScore = 1 - 3 * (std(Pos.ToArray()) + std(Neg.ToArray())) / (Math.Abs(Mean(Pos.ToArray()) - Mean(Neg.ToArray())));
// GlobalInfo.ConsoleWriteLine(CompleteScreening.ListDescriptors[Desc].GetName() + ", Z-Score = " + ZScore);
// cSimpleSignature TmpDesc = new cSimpleSignature(CompleteScreening.ListDescriptors[Desc].GetName(), ZScore);
// ZFactorList.Add(TmpDesc);
//}
//ZFactorList.Sort(delegate(cSimpleSignature p1, cSimpleSignature p2) { return p1.AverageValue.CompareTo(p2.AverageValue); });
//Series CurrentSeries = new Series();
//CurrentSeries.ChartType = SeriesChartType.Column;
//CurrentSeries.ShadowOffset = 1;
//Series SeriesLine = new Series();
//SeriesLine.Name = "SeriesLine";
//SeriesLine.ShadowOffset = 1;
//SeriesLine.ChartType = SeriesChartType.Line;
//int RealIdx = 0;
//for (int IdxValue = 0; IdxValue < ZFactorList.Count; IdxValue++)
//{
// if (double.IsNaN(ZFactorList[IdxValue].AverageValue)) continue;
// if (double.IsInfinity(ZFactorList[IdxValue].AverageValue)) continue;
// CurrentSeries.Points.Add(ZFactorList[IdxValue].AverageValue);
// CurrentSeries.Points[RealIdx].Label = ZFactorList[IdxValue].AverageValue.ToString("N2");
// CurrentSeries.Points[RealIdx].Font = new Font("Arial", 10);
// CurrentSeries.Points[RealIdx].ToolTip = ZFactorList[IdxValue].Name;
// CurrentSeries.Points[RealIdx].AxisLabel = ZFactorList[IdxValue].Name;
// SeriesLine.Points.Add(ZFactorList[IdxValue].AverageValue);
// SeriesLine.Points[RealIdx].BorderColor = Color.Black;
// SeriesLine.Points[RealIdx].MarkerStyle = MarkerStyle.Circle;
// SeriesLine.Points[RealIdx].MarkerSize = 4;
// RealIdx++;
//}
//SimpleForm NewWindow = new SimpleForm(CompleteScreening);
//int thisWidth = 200 * RealIdx;
//if (thisWidth > (int)GlobalInfo.OptionsWindow.numericUpDownMaximumWidth.Value) thisWidth = (int)GlobalInfo.OptionsWindow.numericUpDownMaximumWidth.Value;
//NewWindow.Width = thisWidth;
//NewWindow.Height = 400;
//NewWindow.Text = "Z-factors";
//ChartArea CurrentChartArea = new ChartArea();
//CurrentChartArea.BorderColor = Color.Black;
//CurrentChartArea.AxisX.Interval = 1;
//NewWindow.chartForSimpleForm.Series.Add(CurrentSeries);
//NewWindow.chartForSimpleForm.Series.Add(SeriesLine);
//CurrentChartArea.AxisX.IsLabelAutoFit = true;
//NewWindow.chartForSimpleForm.ChartAreas.Add(CurrentChartArea);
//CurrentChartArea.Axes[1].Maximum = 2;
//CurrentChartArea.Axes[1].IsMarksNextToAxis = true;
//CurrentChartArea.Axes[0].MajorGrid.Enabled = false;
//CurrentChartArea.Axes[1].MajorGrid.Enabled = false;
//NewWindow.chartForSimpleForm.TextAntiAliasingQuality = TextAntiAliasingQuality.High;
//CurrentChartArea.BackGradientStyle = GradientStyle.TopBottom;
//CurrentChartArea.BackColor = CompleteScreening.GlobalInfo.OptionsWindow.panel1.BackColor;
//CurrentChartArea.BackSecondaryColor = Color.White;
//CurrentChartArea.AxisX.ScaleView.Zoomable = true;
//CurrentChartArea.AxisY.ScaleView.Zoomable = true;
//Title CurrentTitle = new Title(CompleteScreening.GetCurrentDisplayPlate().Name + " Z-factors");
//CurrentTitle.Font = new System.Drawing.Font("Arial", 11, FontStyle.Bold);
//NewWindow.chartForSimpleForm.Titles.Add(CurrentTitle);
//NewWindow.Show();
//NewWindow.chartForSimpleForm.Update();
//NewWindow.chartForSimpleForm.Show();
//NewWindow.AutoScroll = true;
//NewWindow.Controls.AddRange(new System.Windows.Forms.Control[] { NewWindow.chartForSimpleForm });
#endregion
cGUI_2ClassesSelection GUI_ListClasses = new cGUI_2ClassesSelection();
if (ProcessModeCurrentPlateOnlyToolStripMenuItem.Checked)
{
GUI_ListClasses.PanelRight_IsCheckBoxes = true;
}
if (GUI_ListClasses.Run(this.GlobalInfo).IsSucceed == false) return;
cExtendedTable ListClassSelected = GUI_ListClasses.GetOutPut();
int IdxClassNeg = -1;
int IdxClassPos = -1;
for (int IdxC = 0; IdxC < ListClassSelected[0].Count; IdxC++)
{
if (ListClassSelected[0][IdxC] == 1) IdxClassNeg = IdxC;
if (ListClassSelected[1][IdxC] == 1) IdxClassPos = IdxC;
}
string SubTitle = "Z-Factor";
if (_QCZRobustItem.Checked)
SubTitle += " (Robust)";
#region Single plate
cDesignerTab DT = new cDesignerTab();
// cDesignerMultiChoices DT = new cDesignerMultiChoices();
if ((ProcessModeCurrentPlateOnlyToolStripMenuItem.Checked)/*||(ProcessModeEntireScreeningToolStripMenuItem.Checked)*/)
{
List<cPlate> ListPlatesToProcess = new List<cPlate>();
cPlate TmpPlate = cGlobalInfo.CurrentScreening.GetCurrentDisplayPlate();
// foreach (cPlate TmpPlate in ListPlatesToProcess)
// GUI_ListClasses.Get
// ListClassSelected
List<int> ListCheckBoxes = new List<int>();
for (int i = 0; i < ListClassSelected[1].Count; i++)
{
if (ListClassSelected[1][i] > 0)
ListCheckBoxes.Add(i);
}
for (int IdxClassSelected = 0; IdxClassSelected < ListCheckBoxes.Count; IdxClassSelected++)
{
cListWells ListWellsToProcess1 = new cListWells(null);
cListWells ListWellsToProcess2 = new cListWells(null);
int CurrentClassTobeProcessed = ListCheckBoxes[IdxClassSelected];
foreach (cWell item in TmpPlate.ListActiveWells)
{
if (item.GetCurrentClassIdx() != -1)
{
if (ListClassSelected[0][item.GetCurrentClassIdx()] == 1)
ListWellsToProcess1.Add(item);
if (item.GetCurrentClassIdx() == CurrentClassTobeProcessed)
// if (ListClassSelected[1][ListCheckBoxes[IdxClassSelected]] == 1)
ListWellsToProcess2.Add(item);
}
}
cExtendedTable NewTable1 = new cExtendedTable(ListWellsToProcess1, true);
cExtendedTable NewTable2 = new cExtendedTable(ListWellsToProcess2, true);
if ((NewTable1.Count == 0) || (NewTable1[0].Count < 2) || (NewTable2.Count == 0) || (NewTable2[0].Count < 2))
{
if (ProcessModeCurrentPlateOnlyToolStripMenuItem.Checked)
{
MessageBox.Show("Insufficient number of control wells", "Error", MessageBoxButtons.OK, MessageBoxIcon.Error);
return;
}
//else
// continue;
}
cExtendedList ListZ = new cExtendedList();
List<cDescriptorType> ListDescForZFactor = new List<cDescriptorType>();
List<string> ListNames = new List<string>();
int RealIdx = 0;
for (int IDxDesc = 0; IDxDesc < cGlobalInfo.CurrentScreening.ListDescriptors.Count; IDxDesc++)
{
if (!cGlobalInfo.CurrentScreening.ListDescriptors[IDxDesc].IsActive()) continue;
cExtendedTable TableForZ = new cExtendedTable();
TableForZ.Add(NewTable1[RealIdx]);
TableForZ.Add(NewTable2[RealIdx]);
RealIdx++;
cZFactor ZF = new cZFactor();
ZF.SetInputData(TableForZ);
ZF.IsRobust = _QCZRobustItem.Checked;
ZF.Run();
ListZ.Add(ZF.GetOutPut()[0][1]);
ListDescForZFactor.Add(cGlobalInfo.CurrentScreening.ListDescriptors[IDxDesc]);
}
cExtendedTable ET = new cExtendedTable(new cExtendedTable(ListZ));
ET[0].ListTags = new List<object>();
ET[0].ListTags.AddRange(ListDescForZFactor);
ET.Name = TmpPlate.GetName() + "\n" + SubTitle + " - " + cGlobalInfo.ListWellClasses[IdxClassNeg].Name + " (" + NewTable1[0].Count + " wells) vs. " + cGlobalInfo.ListWellClasses[CurrentClassTobeProcessed].Name + " (" + NewTable2[0].Count + " wells)";
ET[0].Name = ET.Name;
cSort S = new cSort();
S.SetInputData(ET);
S.ColumnIndexForSorting = 0;
S.Run();
//ZFactorList.Sort(delegate(cSimpleSignature p1, cSimpleSignature p2) { return p1.AverageValue.CompareTo(p2.AverageValue); });
cViewerGraph1D VG1 = new cViewerGraph1D();
VG1.SetInputData(S.GetOutPut());
VG1.Chart.LabelAxisY = SubTitle;
VG1.Chart.LabelAxisX = "Descriptor";
VG1.Chart.IsZoomableX = true;
VG1.Chart.IsBar = true;
VG1.Chart.IsBorder = true;
VG1.Chart.IsDisplayValues = true;
VG1.Chart.IsShadow = true;
VG1.Chart.MarkerSize = 4;
VG1.Chart.DefaultAxisYMax = new cExtendedList();
VG1.Chart.DefaultAxisYMax.Add(1);
if (!cGlobalInfo.OptionsWindow.FFAllOptions.checkBoxZscoreMinValueAutomated.Checked)
{
VG1.Chart.DefaultAxisYMin = new cExtendedList();
VG1.Chart.DefaultAxisYMin.Add((double)cGlobalInfo.OptionsWindow.FFAllOptions.numericUpDownZscoreMinValue.Value);
}
VG1.Title = TmpPlate.GetName();
Classes.Base_Classes.General.cLineHorizontalForGraph VLZ05 = new Classes.Base_Classes.General.cLineHorizontalForGraph(.5);
VLZ05.IsAllowMoving = true;
VG1.Chart.ListHorizontalLines.Add(VLZ05);
VG1.Run();
cDesignerSplitter DS = new cDesignerSplitter();
DS.Orientation = Orientation.Vertical;
DS.SetInputData(VG1.GetOutPut());
cSort S1 = new cSort();
S1.SetInputData(ET);
S1.ColumnIndexForSorting = 0;
S1.IsAscending = false;
S1.Run();
cViewerTable VT = new cViewerTable();
VT.SetInputData(S1.GetOutPut());
VT.Run();
DS.SetInputData(VT.GetOutPut());
DS.Title = cGlobalInfo.ListWellClasses[IdxClassNeg].Name + " vs. " + cGlobalInfo.ListWellClasses[CurrentClassTobeProcessed].Name;
DS.Run();
DT.SetInputData(DS.GetOutPut());
}
DT.Run();
cDisplayToWindow CDW = new cDisplayToWindow();
CDW.SetInputData(DT.GetOutPut());//VG1.GetOutPut());
CDW.Title = SubTitle + " - " + TmpPlate.GetName();
CDW.Run();
CDW.Display();
}
#endregion
#region plate by plate
DT = new cDesignerTab();
// cDesignerMultiChoices DT = new cDesignerMultiChoices();
if ((ProcessModeplateByPlateToolStripMenuItem.Checked)/*||(ProcessModeEntireScreeningToolStripMenuItem.Checked)*/)
{
List<cPlate> ListPlatesToProcess = new List<cPlate>();
if ((ProcessModeplateByPlateToolStripMenuItem.Checked)/*||(ProcessModeEntireScreeningToolStripMenuItem.Checked)*/)
{
foreach (cPlate TmpPlate in cGlobalInfo.CurrentScreening.ListPlatesActive)
ListPlatesToProcess.Add(TmpPlate);
}
foreach (cPlate TmpPlate in ListPlatesToProcess)
{
cListWells ListWellsToProcess1 = new cListWells(null);
cListWells ListWellsToProcess2 = new cListWells(null);
foreach (cWell item in TmpPlate.ListActiveWells)
{
if (item.GetCurrentClassIdx() != -1)
{
if (ListClassSelected[0][item.GetCurrentClassIdx()] == 1)
ListWellsToProcess1.Add(item);
if (ListClassSelected[1][item.GetCurrentClassIdx()] == 1)
ListWellsToProcess2.Add(item);
}
}
cExtendedTable NewTable1 = new cExtendedTable(ListWellsToProcess1, true);
cExtendedTable NewTable2 = new cExtendedTable(ListWellsToProcess2, true);
if ((NewTable1.Count == 0) || (NewTable1[0].Count < 2) || (NewTable2.Count == 0) || (NewTable2[0].Count < 2))
{
if (ProcessModeCurrentPlateOnlyToolStripMenuItem.Checked)
{
MessageBox.Show("Insufficient number of control wells", "Error", MessageBoxButtons.OK, MessageBoxIcon.Error);
return;
}
else
continue;
}
cExtendedList ListZ = new cExtendedList();
List<cDescriptorType> ListDescForZFactor = new List<cDescriptorType>();
List<string> ListNames = new List<string>();
int RealIdx = 0;
for (int IDxDesc = 0; IDxDesc < cGlobalInfo.CurrentScreening.ListDescriptors.Count; IDxDesc++)
{
if (!cGlobalInfo.CurrentScreening.ListDescriptors[IDxDesc].IsActive()) continue;
cExtendedTable TableForZ = new cExtendedTable();
TableForZ.Add(NewTable1[RealIdx]);
TableForZ.Add(NewTable2[RealIdx]);
RealIdx++;
cZFactor ZF = new cZFactor();
ZF.SetInputData(TableForZ);
ZF.IsRobust = _QCZRobustItem.Checked;
ZF.Run();
ListZ.Add(ZF.GetOutPut()[0][1]);
ListDescForZFactor.Add(cGlobalInfo.CurrentScreening.ListDescriptors[IDxDesc]);
}
cExtendedTable ET = new cExtendedTable(new cExtendedTable(ListZ));
ET[0].ListTags = new List<object>();
ET[0].ListTags.AddRange(ListDescForZFactor);
ET.Name = TmpPlate.GetName() + "\n" + SubTitle + " - " + cGlobalInfo.ListWellClasses[IdxClassNeg].Name + " (" + NewTable1[0].Count + " wells) vs. " + cGlobalInfo.ListWellClasses[IdxClassPos].Name + " (" + NewTable2[0].Count + " wells)";
ET[0].Name = ET.Name;
cSort S = new cSort();
S.SetInputData(ET);
S.ColumnIndexForSorting = 0;
S.Run();
//ZFactorList.Sort(delegate(cSimpleSignature p1, cSimpleSignature p2) { return p1.AverageValue.CompareTo(p2.AverageValue); });
cViewerGraph1D VG1 = new cViewerGraph1D();
VG1.SetInputData(S.GetOutPut());
VG1.Chart.LabelAxisY = SubTitle;
VG1.Chart.LabelAxisX = "Descriptor";
VG1.Chart.IsZoomableX = true;
VG1.Chart.IsBar = true;
VG1.Chart.IsBorder = true;
VG1.Chart.IsDisplayValues = true;
VG1.Chart.IsShadow = true;
VG1.Chart.MarkerSize = 4;
VG1.Chart.DefaultAxisYMax = new cExtendedList();
VG1.Chart.DefaultAxisYMax.Add(1);
if (!cGlobalInfo.OptionsWindow.FFAllOptions.checkBoxZscoreMinValueAutomated.Checked)
{
VG1.Chart.DefaultAxisYMin = new cExtendedList();
VG1.Chart.DefaultAxisYMin.Add((double)cGlobalInfo.OptionsWindow.FFAllOptions.numericUpDownZscoreMinValue.Value);
}
VG1.Title = TmpPlate.GetName();
Classes.Base_Classes.General.cLineHorizontalForGraph VLZ05 = new Classes.Base_Classes.General.cLineHorizontalForGraph(.5);
VLZ05.IsAllowMoving = true;
VG1.Chart.ListHorizontalLines.Add(VLZ05);
VG1.Run();
cDesignerSplitter DS = new cDesignerSplitter();
DS.Orientation = Orientation.Vertical;
DS.SetInputData(VG1.GetOutPut());
cSort S1 = new cSort();
S1.SetInputData(ET);
S1.ColumnIndexForSorting = 0;
S1.IsAscending = false;
S1.Run();
cViewerTable VT = new cViewerTable();
VT.SetInputData(S1.GetOutPut());
VT.Run();
DS.SetInputData(VT.GetOutPut());
DS.Title = TmpPlate.GetName();
DS.Run();
DT.SetInputData(DS.GetOutPut());
}
DT.Run();
cDisplayToWindow CDW = new cDisplayToWindow();
CDW.SetInputData(DT.GetOutPut());//VG1.GetOutPut());
CDW.Title = SubTitle + " - " + ListPlatesToProcess.Count + " plates";
CDW.Run();
CDW.Display();
}
#endregion
#region entire screening
else if (ProcessModeEntireScreeningToolStripMenuItem.Checked)
{
List<cPlate> ListPlatesToProcess = new List<cPlate>();
foreach (cPlate TmpPlate in cGlobalInfo.CurrentScreening.ListPlatesActive)
ListPlatesToProcess.Add(TmpPlate);
cExtendedList ListZ = new cExtendedList();
List<cPlate> ListPlatesForZFactor = new List<cPlate>();
foreach (cPlate TmpPlate in ListPlatesToProcess)
{
cListWells ListWellsToProcess1 = new cListWells(null);
cListWells ListWellsToProcess2 = new cListWells(null);
foreach (cWell item in TmpPlate.ListActiveWells)
{
if (item.GetCurrentClassIdx() != -1)
{
if (ListClassSelected[0][item.GetCurrentClassIdx()] == 1)
ListWellsToProcess1.Add(item);
if (ListClassSelected[1][item.GetCurrentClassIdx()] == 1)
ListWellsToProcess2.Add(item);
}
}
cExtendedTable NewTable1 = new cExtendedTable(ListWellsToProcess1, cGlobalInfo.CurrentScreening.ListDescriptors.GetDescriptorIndex(cGlobalInfo.CurrentScreening.ListDescriptors.GetActiveDescriptor()));
cExtendedTable NewTable2 = new cExtendedTable(ListWellsToProcess2, cGlobalInfo.CurrentScreening.ListDescriptors.GetDescriptorIndex(cGlobalInfo.CurrentScreening.ListDescriptors.GetActiveDescriptor()));
//cExtendedTable NewTable2 = new cExtendedTable(ListWellsToProcess2, false);
if ((NewTable1.Count == 0) || (NewTable1[0].Count < 2) || (NewTable2.Count == 0) || (NewTable2[0].Count < 2))
{
if (ProcessModeCurrentPlateOnlyToolStripMenuItem.Checked)
{
MessageBox.Show("Insufficient number of control wells", "Error", MessageBoxButtons.OK, MessageBoxIcon.Error);
return;
}
else
continue;
}
cExtendedTable TableForZ = new cExtendedTable();
TableForZ.Add(NewTable1[0]);
TableForZ.Add(NewTable2[0]);
cZFactor ZF = new cZFactor();
ZF.IsRobust = _QCZRobustItem.Checked;
ZF.SetInputData(TableForZ);
ZF.Run();
double Zfactor = ZF.GetOutPut()[0][1];
ListZ.Add(Zfactor);
// update plate quality
TmpPlate.ListProperties.UpdateValueByName("Quality", Math.Exp(Zfactor - 1));
cProperty Prop = TmpPlate.ListProperties.FindByName("Quality");
Prop.Info = ZF.GetInfo();
ListPlatesForZFactor.Add(TmpPlate);
}
cExtendedTable ET = new cExtendedTable(new cExtendedTable(ListZ));
ET[0].ListTags = new List<object>();
ET[0].ListTags.AddRange(ListPlatesForZFactor);
ET.Name = SubTitle + " - " + cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName() + " - " + cGlobalInfo.ListWellClasses[IdxClassNeg].Name + /*" (" + NewTable1[0].Count + " wells)*/ " vs. " + cGlobalInfo.ListWellClasses[IdxClassPos].Name;// +" (" + NewTable2[0].Count + " wells)";
ET[0].Name = ET.Name;
cViewerGraph1D VG1 = new cViewerGraph1D();
VG1.SetInputData(ET);
VG1.Chart.LabelAxisY = SubTitle;
VG1.Chart.LabelAxisX = "Plate";
VG1.Chart.IsZoomableX = true;
VG1.Chart.IsBar = true;
VG1.Chart.IsBorder = true;
VG1.Chart.IsDisplayValues = true;
VG1.Chart.IsShadow = true;
VG1.Chart.MarkerSize = 4;
VG1.Chart.DefaultAxisYMax = new cExtendedList();
VG1.Chart.DefaultAxisYMax.Add(1);
if (!cGlobalInfo.OptionsWindow.FFAllOptions.checkBoxZscoreMinValueAutomated.Checked)
{
VG1.Chart.DefaultAxisYMin = new cExtendedList();
VG1.Chart.DefaultAxisYMin.Add((double)cGlobalInfo.OptionsWindow.FFAllOptions.numericUpDownZscoreMinValue.Value);
}
Classes.Base_Classes.General.cLineHorizontalForGraph VLZ05 = new Classes.Base_Classes.General.cLineHorizontalForGraph(.5);
VLZ05.IsAllowMoving = true;
VG1.Chart.ListHorizontalLines.Add(VLZ05);
VG1.Title = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName();
VG1.Run();
cDisplayToWindow CDW = new cDisplayToWindow();
CDW.SetInputData(VG1.GetOutPut());
CDW.Title = SubTitle + " - " + ListPlatesToProcess.Count + " plates";
CDW.Run();
CDW.Display();
#endregion
}
}
private void AssociatedChart_DragDrop(object sender, DragEventArgs e)
{
cListWells List_Wells = (cListWells)e.Data.GetData(typeof(cListWells));
cExtendedTable ET = new cExtendedTable();
ET.Name = "Distance to " + this.GetShortInfo().Remove(this.GetShortInfo().Length - 1);
ET.ListRowNames = new List<string>();
ET.ListTags = new List<object>();
ET.Add(new cExtendedList("Euclidean"));
ET.Add(new cExtendedList("Manhattan"));
ET.Add(new cExtendedList("Vector Cosine"));
ET[0].ListTags = new List<object>();
ET[1].ListTags = new List<object>();
ET[2].ListTags = new List<object>();
string Info = "Distance from:\n" + this.GetShortInfo() + "\nto:\n";
foreach (cWell item in List_Wells)
{
ET.ListRowNames.Add(item.GetShortInfo().Remove(item.GetShortInfo().Length - 1));
ET.ListTags.Add(item);
ET[0].Add(item.DistanceTo(this, eDistances.EUCLIDEAN));
ET[0].ListTags.Add(item);
ET[1].Add(item.DistanceTo(this, eDistances.MANHATTAN));
ET[1].ListTags.Add(item);
ET[2].Add(item.DistanceTo(this, eDistances.VECTOR_COS));
ET[2].ListTags.Add(item);
Info += item.GetShortInfo();
}
cViewerTable VT = new cViewerTable();
VT.SetInputData(ET);
VT.Run();
cDesignerSplitter DS = new cDesignerSplitter();
DS.Orientation = Orientation.Vertical;
cViewertext VText = new cViewertext();
Info += "\nDescriptors:\n\n";
int Idx = 0;
for (int i = 0; i < cGlobalInfo.CurrentScreening.ListDescriptors.Count; i++)
{
if (cGlobalInfo.CurrentScreening.ListDescriptors[i].IsActive())
{
Info += (Idx++) + " - " + cGlobalInfo.CurrentScreening.ListDescriptors[i].GetName() + "\n";
}
}
VText.SetInputData(Info);
VText.Run();
DS.SetInputData(VText.GetOutPut());
DS.SetInputData(VT.GetOutPut());
DS.Run();
cDisplayToWindow DTW = new cDisplayToWindow();
DTW.SetInputData(DS.GetOutPut());
DTW.Title = ET.Name;
DTW.Run();
DTW.Display();
}
private void backgroundWorkerForCSVtoDB_RunWorkerCompleted(object sender, RunWorkerCompletedEventArgs e)
{
if (e.Error != null)
{
System.Windows.Forms.MessageBox.Show("Error while processing the data", "Error!", MessageBoxButtons.OK, MessageBoxIcon.Error);
}
else
{
// //FormForPlateDimensions PlateDim = new FormForPlateDimensions();
// //PlateDim.Text = "Load generated screening";
// //PlateDim.checkBoxAddCellNumber.Visible = true;
// //PlateDim.checkBoxIsOmitFirstColumn.Visible = true;
// //PlateDim.labelHisto.Visible = true;
// //PlateDim.numericUpDownHistoSize.Visible = true;
// //if (PlateDim.ShowDialog() != System.Windows.Forms.DialogResult.OK)
// // return;
// // LoadCellByCellDB(PlateDim, this.SelectedPath);
cDesignerSplitter DS = new cDesignerSplitter();
DS.Orientation = Orientation.Vertical;
cViewertext VT = new cViewertext();
VT.SetInputData(this.CompleteReportString);
VT.Run();
cViewerGraph1D VG1 = new cViewerGraph1D();
VG1.Chart.LabelAxisX = "Well Index";
VG1.Chart.LabelAxisY = "Number of objects";
VG1.Chart.IsLine = true;
VG1.Chart.IsZoomableX = true;
VG1.Chart.IsXGrid = true;
VG1.SetInputData(ReportTable);
VG1.Run();
DS.SetInputData(VT.GetOutPut());
DS.SetInputData(VG1.GetOutPut());
DS.Run();
cDisplayToWindow DTW = new cDisplayToWindow();
DTW.Title = "CSV->DB report";
DTW.IsModal = false;
DTW.SetInputData(DS.GetOutPut());
DTW.Run();
DTW.Display();
if (MessageBox.Show("Database successfully created.\nDo you want load it?", "Question !", MessageBoxButtons.YesNo, MessageBoxIcon.Question) == System.Windows.Forms.DialogResult.No)
return;
else
cGlobalInfo.WindowHCSAnalyzer.LoadDB(this.SelectedPath, false);
}
}
private void histogramsToolStripMenuItem_Click(object sender, EventArgs e)
{
cGUI_ListClasses GUIClasses = new cGUI_ListClasses();
GUIClasses.IsCheckBoxes = false;
GUIClasses.ClassType = eClassType.PHENOTYPE;
if (!GUIClasses.Run().IsSucceed) return;
cGUI_ListClasses GUIClassesWells = new cGUI_ListClasses();
GUIClassesWells.IsCheckBoxes = true;
GUIClassesWells.ClassType = eClassType.WELL;
if (!GUIClassesWells.Run().IsSucceed) return;
List<cWellClassType> ListClass = new List<cWellClassType>();
for (int i = 0; i < GUIClassesWells.GetOutPut()[0].Count; i++)
{
if (GUIClassesWells.GetOutPut()[0][i] == 1)
ListClass.Add(cGlobalInfo.ListWellClasses[i]);
}
cGUI_ListPlates GUIListPlates = new cGUI_ListPlates();
GUIListPlates.IsCheckBoxes = true;
if (!GUIListPlates.Run().IsSucceed) return;
List<cDescriptorType> LCDT = new List<cDescriptorType>();
LCDT.Add(cGlobalInfo.CurrentScreening.ListDescriptors.GetActiveDescriptor());
cDesignerTab DT = new cDesignerTab();
DT.IsMultiline = false;
foreach (var TmpPlate in GUIListPlates.GetOutPut())
{
cListWells CurrentPlateListWells = TmpPlate.ListWells.Filter(ListClass);
cExtendedTable FinalTable = new cExtendedTable();
FinalTable.Name = TmpPlate.GetName() + " - " + CurrentPlateListWells.Count + " wells";
for (int i = 0; i < GUIClasses.GetOutPut()[0].Count; i++)
{
if (GUIClasses.GetOutPut()[0][i] == 1)
{
FinalTable.Add(new cExtendedList());
FinalTable[0].Name = cGlobalInfo.ListCellularPhenotypes[i].Name;
FinalTable[0].Tag = cGlobalInfo.ListCellularPhenotypes[i];
}
}
foreach (cWell TmpWell in CurrentPlateListWells)
{
TmpWell.AssociatedPlate.DBConnection = new cDBConnection(TmpWell.AssociatedPlate, TmpWell.SQLTableName);
for (int i = 0; i < GUIClasses.GetOutPut()[0].Count; i++)
{
if (GUIClasses.GetOutPut()[0][i] == 1)
{
List<cCellularPhenotype> ListCellularPhenotypesToBeSelected = new List<cCellularPhenotype>();
ListCellularPhenotypesToBeSelected.Add(cGlobalInfo.ListCellularPhenotypes[i]);
cExtendedTable TmpET = TmpWell.AssociatedPlate.DBConnection.GetWellValues(TmpWell,
LCDT, ListCellularPhenotypesToBeSelected);
if (TmpET.Count > 0) FinalTable[0].AddRange(TmpET[0]);
break;
}
}
TmpWell.AssociatedPlate.DBConnection.CloseConnection();
}
cViewerHistogram VH = new cViewerHistogram();
//cViewerStackedHistogram VSH = new cViewerStackedHistogram();
VH.SetInputData(FinalTable);
//VH.Chart.BinNumber = -1;
//VSH.Chart.Is
//VH.ListProperties.FindByName("Bin Number").SetNewValue((int)100);
//VH.ListProperties.FindByName("Bin Number").IsGUIforValue = true;
// VSH.Chart.BinNumber = LCDT[0].GetBinNumber();
VH.Chart.IsShadow = false;
VH.Chart.IsBorder = true;
VH.Chart.IsXGrid = true;
VH.Chart.IsHistoNormalized = true;
VH.Chart.IsBar = true;
VH.Chart.IsYGrid = true;
VH.Chart.LabelAxisX = LCDT[0].GetName();
VH.Title = TmpPlate.GetName();
VH.Run();
VH.Chart.Width = 0;
VH.Chart.Height = 0;
cDesignerSplitter DS = new cDesignerSplitter();
DS.Orientation = Orientation.Vertical;
DS.SetInputData(VH.GetOutPut());
cHistogramBuilder HB = new cHistogramBuilder();
HB.SetInputData(FinalTable);
HB.BinNumber = -1;
HB.IsNormalized = true;
HB.Run();
cViewerTable VT = new cViewerTable();
VT.SetInputData(HB.GetOutPut());
VT.Run();
DS.SetInputData(VT.GetOutPut());
DS.Title = TmpPlate.GetName();
DS.Run();
//DS.SetInputData(HB.Get
DT.SetInputData(DS.GetOutPut());
}
DT.Run();
cDisplayToWindow DTW = new cDisplayToWindow();
DTW.SetInputData(DT.GetOutPut());
DTW.Title = "Single cell based Histograms";
DTW.Run();
DTW.Display();
}
private void sigmoidFittToolStripMenuItem_Click(object sender, EventArgs e)
{
int NumberOfReplicate = 4;
int NumberOfCurves = 30;
int DRCNumberofPoints = 12;
cExtendedTable FullResults = new cExtendedTable();
FullResults.ListRowNames = new List<string>();
double RealEC50 = 0.0001;
int NumberOfDiffEC50 = 20;
int NumberOfSlopes = 100;
// for (int EC50 = 0; EC50 < NumberOfDiffEC50; EC50++)
{
//double TmpSlopeValue = 0.0;
for (int EC50 = 0; EC50 < NumberOfDiffEC50; EC50++)
//for (int SlopeTmp = 0; SlopeTmp < NumberOfSlopes; SlopeTmp++)
{
RealEC50 *= 2;
//TmpSlopeValue += 0.1;
cExtendedList ListPValues = new cExtendedList("EC50 - " + RealEC50/*TmpSlopeValue*/);
cDesignerTab DT = new cDesignerTab();
DT.IsMultiline = false;
cDataGeneratorTitration GT = new cDataGeneratorTitration();
GT.NumberOfPoint = DRCNumberofPoints;
GT.Start = 5;
GT.DilutionFactor = 2;
GT.Run();
Random RND = new Random();
//cExtendedTable EXT = new cExtendedTable();
//EXT.ListRowNames = new List<string>();
//EXT.Name = "Quality fitting Report";
//EXT.Add(new cExtendedList("Noise Level"));
//EXT.Add(new cExtendedList("Original EC50"));
//EXT.Add(new cExtendedList("Estimated EC50"));
//EXT.Add(new cExtendedList("p-Value"));
for (int i = 0; i < NumberOfCurves; i++)
{
cExtendedTable FinalTable = new cExtendedTable();
cDataGeneratorSigmoid DGS = null;
DGS = new cDataGeneratorSigmoid();
DGS.SetInputData(GT.GetOutPut()[0]);
DGS.EC50 = RealEC50;// 0.01;// 1;// 0.1;// Math.Pow((double)10, -2);
DGS.Bottom = 0;
DGS.Top = 100;
DGS.Slope = 2;// TmpSlopeValue;//1;
DGS.Run();
cAddNoise AN = new cAddNoise();
AN.DistributionType = eRandDistributionType.GAUSSIAN;
double NoiseLevel = (i + 1) * 5;
// EXT[0].Add(NoiseLevel);
// EXT[1].Add(DGS.EC50);
#region loop over the replicates
for (int NumReplic = 0; NumReplic < NumberOfReplicate; NumReplic++)
{
//AN.Mean = 0;
//AN.Stdv = 10;
//AN.SetInputData(DGS.GetOutPut());
//AN.Run();
cExtendedList NewL = DGS.GetOutPut()[1];
for (int k = 0; k < NewL.Count; k++)
{
NewL[k] += RND.NextDouble() * NoiseLevel;
}
cExtendedTable TmpTable = new cExtendedTable();
TmpTable.Add(GT.GetOutPut()[0]);
TmpTable.Add(/*AN.GetOutPut()[1]*/NewL);
if (NumReplic >= 1)
{
cMerge M = new cMerge();
M.IsHorizontal = false;
M.SetInputData(TmpTable, FinalTable);
M.Run();
FinalTable = M.GetOutPut();
}
else
FinalTable = new cExtendedTable(TmpTable);
}
#endregion
//cListWell LW = new cListWell(null);
//foreach (cWell item in CompleteScreening.GetCurrentDisplayPlate().ListActiveWells)
//{
// if (item.GetClassIdx() == 0)
// LW.Add(item);
//}
//cExtendedTable ET = LW.GetDescriptorValues(CompleteScreening.ListDescriptors.GetActiveDescriptors(), true);
cCurveForGraph CFG = new cCurveForGraph();
CFG.SetInputData(FinalTable);
CFG.Run();
// compute ANOVA
cANOVA S = new cANOVA();
cExtendedTable NewTable = CFG.ListPtValues.Crop(0, CFG.ListPtValues.Count - 1, 1, CFG.ListPtValues[0].Count - 1);
S.SignificanceThreshold = 1E-11;
S.SetInputData(NewTable);
S.Run();
//cLinearRegression LR = new cLinearRegression();
//LR.SetInputData(FinalTable);
//LR.Run();
cSigmoidFitting SF = new cSigmoidFitting();
SF.SetInputData(FinalTable);
if (SF.Run().IsSucceed == false) continue;
// double Ratio = LR.GetOutPut()[0][LR.GetOutPut().Count - 1] / SF.GetOutPut()[0][SF.GetOutPut().Count - 1];
cExtendedTable Sigmoid = SF.GetFittedRawValues(GT.GetOutPut()[0]);
FinalTable[0] = Sigmoid[1];
cDesignerSplitter DS = new cDesignerSplitter();
////cViewerTableAsRichText VT = new cViewerTableAsRichText();
cViewerTable VT = new cViewerTable();
cExtendedTable TableResults = SF.GetOutPut();
TableResults[0].Add(S.GetOutPut()[0][0]);
ListPValues.Add(S.GetOutPut()[0][0]);
TableResults[0].Add(S.GetOutPut()[0][1]);
TableResults.ListRowNames.Add("p-Value");
TableResults.ListRowNames.Add("Null hyp. rejected?");
VT.SetInputData(TableResults);
VT.DigitNumber = -1;
VT.Run();
cViewerGraph1D VS1 = new cViewerGraph1D();
VS1.SetInputData(new cExtendedTable(Sigmoid[1]));
VS1.AddCurve(CFG);
VS1.Chart.X_AxisValues = Sigmoid[0];//DGS.GetOutPut()[0];
VS1.Chart.IsLogAxis = true;
VS1.Chart.IsLine = true;
VS1.Chart.IsShadow = true;
VS1.Chart.Opacity = 210;
VS1.Chart.LineWidth = 3;
VS1.Chart.LabelAxisX = "Concentration";
VS1.Chart.LabelAxisY = "Readout";
VS1.Chart.XAxisFormatDigitNumber = -1;
VS1.Chart.IsZoomableX = true;
//Classes.Base_Classes.General.cLineVerticalForGraph VLForEC50 = new Classes.Base_Classes.General.cLineVerticalForGraph(SF.GetOutPut()[0][2]);
//VLForEC50.AddText("EC50: " + SF.GetOutPut()[0][2].ToString("e3")/* + "\nError Ratio:" + Ratio.ToString("N4")*/);
//VS1.Chart.ListVerticalLines.Add(VLForEC50);
//VS1.Chart.ArraySeriesInfo = new cSerieInfoDesign[FinalTable.Count];
//EXT[2].Add(SF.GetOutPut()[0][2]);
//EXT[3].Add(S.GetOutPut()[0][0]);
//for (int IdxCurve = 0; IdxCurve < FinalTable.Count; IdxCurve++)
//{
// cSerieInfoDesign TmpSerieInfo = new cSerieInfoDesign();
// TmpSerieInfo.color = Color.FromArgb(100, GlobalInfo.ListCellularPhenotypes[IdxCurve % GlobalInfo.ListCellularPhenotypes.Count].ColourForDisplay);
// TmpSerieInfo.markerStyle = MarkerStyle.Circle;
// VS1.Chart.ArraySeriesInfo[IdxCurve] = TmpSerieInfo;
//}
VS1.Run();
DS.SetInputData(VS1.GetOutPut());
DS.SetInputData(VT.GetOutPut());
DS.Orientation = Orientation.Horizontal;
DS.Title = "Noise Stdev " + NoiseLevel;
DS.Run();
DT.SetInputData(DS.GetOutPut());
// EXT.ListRowNames.Add(DS.Title);
}
DT.Run();
//cDisplayToWindow DTW = new cDisplayToWindow();
//DTW.SetInputData(DT.GetOutPut());
//DTW.Run();
//DTW.Display();
//cDisplayExtendedTable DET = new cDisplayExtendedTable();
//DET.SetInputData(EXT);
//DET.DigitNumber = -1;
//DET.Run();
FullResults.Add(ListPValues);
}
}
cDisplayExtendedTable DET = new cDisplayExtendedTable();
DET.SetInputData(FullResults);
DET.DigitNumber = -1;
DET.Run();
}
void ToolStripMenuItem_DRCAnalysisMultiDesc_Click(object sender, EventArgs e)
{
List<cDescriptorType> ListSelectedDescs = cGlobalInfo.CurrentScreening.ListDescriptors.GetActiveDescriptors();
cListListWells CurrentSelectedGroups = this.BuildListListWells();
#region select folder
var dlg1 = new Ionic.Utils.FolderBrowserDialogEx();
dlg1.Description = "Select the folder containing your databases.";
dlg1.ShowNewFolderButton = true;
dlg1.ShowEditBox = true;
dlg1.ShowFullPathInEditBox = true;
DialogResult result = dlg1.ShowDialog();
if (result != DialogResult.OK) return;
string Path = dlg1.SelectedPath;
if (Directory.Exists(Path) == false) return;
string FolderName = dlg1.SelectedPath;
#endregion
foreach (var item in ListSelectedDescs)
{
string TmpFolder = FolderName + "\\" + item.GetName();
Directory.CreateDirectory(TmpFolder);
int IdxNode = 0;
List<cDescriptorType> ListSelectedDesc = new List<cDescriptorType>();
ListSelectedDesc.Add(item);
cExtendedTable TableForGeneralResuts = new cExtendedTable();
TableForGeneralResuts.Add(new cExtendedList("p-Value"));
TableForGeneralResuts.Add(new cExtendedList("EC50"));
TableForGeneralResuts.Add(new cExtendedList("Slope"));
TableForGeneralResuts.Add(new cExtendedList("Bottom"));
TableForGeneralResuts.Add(new cExtendedList("Top"));
TableForGeneralResuts.Add(new cExtendedList("Window"));
TableForGeneralResuts.Add(new cExtendedList("Area Under Curve"));
TableForGeneralResuts.ListRowNames = new List<string>();
TableForGeneralResuts.ListTags = new List<object>();
foreach (cListWells TmpListWells in CurrentSelectedGroups)
{
// List<cDescriptorType> LType = new List<cDescriptorType>();
// LType.Add(ListSelectedDesc[i]);
cExtendedTable CompleteTable = TmpListWells.GetAverageDescriptorValues(ListSelectedDesc, true, false);
//cExtendedTable CompleteTable = GLP.GetOutPut();
cCurveForGraph CFG = new cCurveForGraph();
CFG.SetInputData(CompleteTable);
CFG.Run();
cSigmoidFitting SF = new cSigmoidFitting();
SF.SetInputData(CompleteTable);
if (SF.Run().IsSucceed == false) continue;
// double Ratio = LR.GetOutPut()[0][LR.GetOutPut().Count - 1] / SF.GetOutPut()[0][SF.GetOutPut().Count - 1];
cANOVA A = new cANOVA();
cExtendedTable NewTable = CFG.ListPtValues.Crop(0, CFG.ListPtValues.Count - 1, 1, CFG.ListPtValues[0].Count - 1);
A.SignificanceThreshold = 1E-11;
A.SetInputData(NewTable);
A.Run();
cExtendedTable Sigmoid = SF.GetFittedRawValues(CFG.GetListXValues());
CompleteTable[0] = Sigmoid[1];
CompleteTable[0].Name = ListSelectedDesc[0].GetName() + "\n" + Sigmoid[1].Name;
cDesignerSplitter DS = new cDesignerSplitter();
//cViewerTableAsRichText VT = new cViewerTableAsRichText();
cViewerTable VT = new cViewerTable();
cExtendedTable TableResults = SF.GetOutPut();
if ((A.GetOutPut() != null) && (A.GetOutPut().Count > 0))
{
TableResults[0].Add(A.GetOutPut()[0][0]);
TableResults[0].Add(A.GetOutPut()[0][1]);
TableResults.ListRowNames.Add("p-Value");
TableResults.ListRowNames.Add("Rejected?");
TableForGeneralResuts[0].Add(A.GetOutPut()[0][0]);
}
else
{
TableForGeneralResuts[0].Add(1);
}
TableResults.Name = TV.Nodes[IdxNode].Text;
TableResults[0].Name = "Fitting Parameters";
VT.SetInputData(TableResults);
VT.DigitNumber = -1;
VT.Run();
cViewerGraph1D VS1 = new cViewerGraph1D();
cExtendedTable MyTable = new cExtendedTable(Sigmoid[1]);
MyTable.Name = TmpListWells.Name;// TV.Nodes[IdxNode].Text;
VS1.SetInputData(MyTable);
VS1.AddCurve(CFG);
VS1.Chart.X_AxisValues = Sigmoid[0];
VS1.Chart.IsLogAxis = true;
VS1.Chart.IsLine = true;
VS1.Chart.IsShadow = false;
VS1.Chart.Opacity = 210;
VS1.Chart.LineWidth = 3;
VS1.Chart.MarkerSize = 8;
VS1.Chart.IsDisplayValues = cGlobalInfo.OptionsWindow.FFAllOptions.checkBoxDRCDisplayValues.Checked;
VS1.Chart.LabelAxisX = "Concentration";
VS1.Chart.LabelAxisY = CompleteTable[1].Name;
VS1.Chart.XAxisFormatDigitNumber = cGlobalInfo.OptionsWindow.FFAllOptions.GetDRCNumberOfDigit();
VS1.Chart.IsZoomableX = true;
Classes.Base_Classes.General.cLineVerticalForGraph VLForEC50 = new Classes.Base_Classes.General.cLineVerticalForGraph(SF.GetOutPut()[0][2]);
//VLForEC50.AddText("EC50: " + SF.GetOutPut()[0][2].ToString("e3")/* + "\nError Ratio:" + Ratio.ToString("N4")*/);
VS1.Chart.ListVerticalLines.Add(VLForEC50);
TableForGeneralResuts.ListRowNames.Add(TV.Nodes[IdxNode].Text);
TableForGeneralResuts.ListTags.Add((Chart)VS1.Chart);//ListSelectedDesc[0]);
//EC50
TableForGeneralResuts[1].Add(SF.GetOutPut()[0][2]);
// Slope
TableForGeneralResuts[2].Add(SF.GetOutPut()[0][3]);
// Bottom
TableForGeneralResuts[3].Add(SF.GetOutPut()[0][0]);
// Top
TableForGeneralResuts[4].Add(SF.GetOutPut()[0][1]);
// Window
double Window = SF.GetOutPut()[0][1] / SF.GetOutPut()[0][0];
TableForGeneralResuts[5].Add(Window);
TableForGeneralResuts[6].Add(SF.GetOutPut()[0][5]);
VS1.Chart.ArraySeriesInfo = new cSerieInfoDesign[CompleteTable.Count];
for (int IdxCurve = 0; IdxCurve < CompleteTable.Count; IdxCurve++)
{
cSerieInfoDesign TmpSerieInfo = new cSerieInfoDesign();
TmpSerieInfo.color = cGlobalInfo.ListCellularPhenotypes[IdxCurve % cGlobalInfo.ListCellularPhenotypes.Count].ColourForDisplay;
TmpSerieInfo.markerStyle = MarkerStyle.None;
VS1.Chart.ArraySeriesInfo[IdxCurve] = TmpSerieInfo;
}
VS1.Run();
//DS.SetInputData(VS1.GetOutPut());
//DS.SetInputData(VT.GetOutPut());
//DS.Orientation = Orientation.Horizontal;
//DS.Title = TV.Nodes[IdxNode++].Text; //TmpListWells.ti;// ListSelectedDesc[0].GetName();
//DS.Run();
IdxNode++;
// DT.SetInputData(DS.GetOutPut());
}
cTableToHTML THTML = new cTableToHTML();
TableForGeneralResuts.Name = item.GetName();
THTML.SetInputData(TableForGeneralResuts);
THTML.IsDisplayUIForFilePath = false;
THTML.FolderName = TmpFolder;
THTML.ListProperties.FindByName("Open HTML File ?").SetNewValue((bool)false);
THTML.ListProperties.FindByName("Open HTML File ?").IsGUIforValue = false;
THTML.Run();
}
System.Diagnostics.Process.Start(FolderName);
}
void ToolStripMenuItem_DRCAnalysis_Click(object sender, EventArgs e)
{
List<cDescriptorType> ListSelectedDesc = new List<cDescriptorType>();// GlobalInfo.CurrentScreening.ListDescriptors.GetActiveDescriptors();
ListSelectedDesc.Add(cGlobalInfo.CurrentScreening.ListDescriptors.GetActiveDescriptor());
//if (GlobalInfo == null) GlobalInfo = cGlobalInfo.CurrentScreening.GlobalInfo;
//if (cGlobalInfo == null) return;
cDesignerMultiChoices DT = new cDesignerMultiChoices();
cExtendedTable TableForGeneralResuts = new cExtendedTable();
TableForGeneralResuts.Add(new cExtendedList("p-Value"));
TableForGeneralResuts.Add(new cExtendedList("EC50"));
TableForGeneralResuts.Add(new cExtendedList("Slope"));
TableForGeneralResuts.Add(new cExtendedList("Bottom"));
TableForGeneralResuts.Add(new cExtendedList("Top"));
TableForGeneralResuts.Add(new cExtendedList("Window"));
TableForGeneralResuts.Add(new cExtendedList("Area Under Curve"));
TableForGeneralResuts.ListRowNames = new List<string>();
TableForGeneralResuts.ListTags = new List<object>();
cDesignerSplitter MainSplitter = new cDesignerSplitter();
int IdxNode = 0;
cListListWells CurrentSelectedGroups = this.BuildListListWells();
foreach (cListWells TmpListWells in CurrentSelectedGroups)
{
// List<cDescriptorType> LType = new List<cDescriptorType>();
// LType.Add(ListSelectedDesc[i]);
cExtendedTable CompleteTable = TmpListWells.GetAverageDescriptorValues(ListSelectedDesc, true, false);
//cExtendedTable CompleteTable = GLP.GetOutPut();
cCurveForGraph CFG = new cCurveForGraph();
CFG.SetInputData(CompleteTable);
CFG.Run();
cSigmoidFitting SF = new cSigmoidFitting();
SF.SetInputData(CompleteTable);
if (SF.Run().IsSucceed == false) continue;
// double Ratio = LR.GetOutPut()[0][LR.GetOutPut().Count - 1] / SF.GetOutPut()[0][SF.GetOutPut().Count - 1];
cANOVA A = new cANOVA();
cExtendedTable NewTable = CFG.ListPtValues.Crop(0, CFG.ListPtValues.Count - 1, 1, CFG.ListPtValues[0].Count - 1);
A.SignificanceThreshold = 1E-11;
A.SetInputData(NewTable);
A.Run();
cExtendedTable Sigmoid = SF.GetFittedRawValues(CFG.GetListXValues());
CompleteTable[0] = Sigmoid[1];
CompleteTable[0].Name = ListSelectedDesc[0].GetName() + "\n" + Sigmoid[1].Name;
cDesignerSplitter DS = new cDesignerSplitter();
//cViewerTableAsRichText VT = new cViewerTableAsRichText();
cViewerTable VT = new cViewerTable();
cExtendedTable TableResults = SF.GetOutPut();
if ((A.GetOutPut() != null) && (A.GetOutPut().Count > 0))
{
TableResults[0].Add(A.GetOutPut()[0][0]);
TableResults[0].Add(A.GetOutPut()[0][1]);
TableResults.ListRowNames.Add("p-Value");
TableResults.ListRowNames.Add("Rejected?");
TableForGeneralResuts[0].Add(A.GetOutPut()[0][0]);
}
else
{
TableForGeneralResuts[0].Add(1);
}
TableResults.Name = TV.Nodes[IdxNode].Text;
TableResults[0].Name = "Fitting Parameters";
VT.SetInputData(TableResults);
VT.DigitNumber = -1;
VT.Run();
cViewerGraph1D VS1 = new cViewerGraph1D();
cExtendedTable MyTable = new cExtendedTable(Sigmoid[1]);
MyTable.Name = TmpListWells.Name;// TV.Nodes[IdxNode].Text;
VS1.SetInputData(MyTable);
VS1.AddCurve(CFG);
VS1.Chart.X_AxisValues = Sigmoid[0];
VS1.Chart.IsLogAxis = true;
VS1.Chart.IsLine = true;
VS1.Chart.IsShadow = false;
VS1.Chart.Opacity = 210;
VS1.Chart.LineWidth = 3;
VS1.Chart.MarkerSize = 8;
VS1.Chart.IsDisplayValues = cGlobalInfo.OptionsWindow.FFAllOptions.checkBoxDRCDisplayValues.Checked;
VS1.Chart.LabelAxisX = "Concentration";
VS1.Chart.LabelAxisY = CompleteTable[1].Name;
VS1.Chart.XAxisFormatDigitNumber = cGlobalInfo.OptionsWindow.FFAllOptions.GetDRCNumberOfDigit();
VS1.Chart.IsZoomableX = true;
Classes.Base_Classes.General.cLineVerticalForGraph VLForEC50 = new Classes.Base_Classes.General.cLineVerticalForGraph(SF.GetOutPut()[0][2]);
//VLForEC50.AddText("EC50: " + SF.GetOutPut()[0][2].ToString("e3")/* + "\nError Ratio:" + Ratio.ToString("N4")*/);
VS1.Chart.ListVerticalLines.Add(VLForEC50);
TableForGeneralResuts.ListRowNames.Add(TV.Nodes[IdxNode].Text);
TableForGeneralResuts.ListTags.Add((Chart)VS1.Chart);//ListSelectedDesc[0]);
//EC50
TableForGeneralResuts[1].Add(SF.GetOutPut()[0][2]);
// Slope
TableForGeneralResuts[2].Add(SF.GetOutPut()[0][3]);
// Bottom
TableForGeneralResuts[3].Add(SF.GetOutPut()[0][0]);
// Top
TableForGeneralResuts[4].Add(SF.GetOutPut()[0][1]);
// Window
double Window = SF.GetOutPut()[0][1] / SF.GetOutPut()[0][0];
TableForGeneralResuts[5].Add(Window);
TableForGeneralResuts[6].Add(SF.GetOutPut()[0][5]);
VS1.Chart.ArraySeriesInfo = new cSerieInfoDesign[CompleteTable.Count];
for (int IdxCurve = 0; IdxCurve < CompleteTable.Count; IdxCurve++)
{
cSerieInfoDesign TmpSerieInfo = new cSerieInfoDesign();
TmpSerieInfo.color = cGlobalInfo.ListCellularPhenotypes[IdxCurve % cGlobalInfo.ListCellularPhenotypes.Count].ColourForDisplay;
TmpSerieInfo.markerStyle = MarkerStyle.None;
VS1.Chart.ArraySeriesInfo[IdxCurve] = TmpSerieInfo;
}
VS1.Run();
DS.SetInputData(VS1.GetOutPut());
DS.SetInputData(VT.GetOutPut());
DS.Orientation = Orientation.Horizontal;
DS.Title = TV.Nodes[IdxNode++].Text; //TmpListWells.ti;// ListSelectedDesc[0].GetName();
DS.Run();
DT.SetInputData(DS.GetOutPut());
}
DT.Run();
cExtendedControl TextEC = DT.GetOutPut();
if (TextEC == null) return;
TextEC.Width = 0;
TextEC.Height = 0;
TextEC.Anchor = (System.Windows.Forms.AnchorStyles)(System.Windows.Forms.AnchorStyles.Top | System.Windows.Forms.AnchorStyles.Bottom
| System.Windows.Forms.AnchorStyles.Left | System.Windows.Forms.AnchorStyles.Right);
MainSplitter.SetInputData(TextEC);
string DRCsortingMethod = cGlobalInfo.OptionsWindow.FFAllOptions.comboBoxDRCSorting.SelectedItem.ToString();
//comboBoxDRCSorting
int IdxColSorting = 0;
cExtendedTable RT = TableForGeneralResuts;
switch (DRCsortingMethod)
{
case "ANOVA":
IdxColSorting = 0;
break;
case "EC50":
IdxColSorting = 1;
break;
case "Window":
IdxColSorting = 5;
break;
case "AUC":
IdxColSorting = 6;
break;
case "None":
IdxColSorting = -1;
break;
default:
break;
}
if (IdxColSorting != -1)
{
cSort S = new cSort();
S.ColumnIndexForSorting = IdxColSorting;
S.SetInputData(TableForGeneralResuts);
S.IsAscending = true;
S.Run();
RT = S.GetOutPut();
}
cViewerTable VTForEC50 = new cViewerTable();
RT.Name = cGlobalInfo.CurrentScreening.ListDescriptors.GetActiveDescriptor().GetName();
VTForEC50.SetInputData(RT);
VTForEC50.DigitNumber = -1;
VTForEC50.Run();
MainSplitter.SetInputData(VTForEC50.GetOutPut());
MainSplitter.Orientation = Orientation.Vertical;
MainSplitter.Run();
cDisplayToWindow DTW = new cDisplayToWindow();
DTW.SetInputData(MainSplitter.GetOutPut());
DTW.Title = "DRC analysis [" + cGlobalInfo.CurrentScreening.ListDescriptors.GetActiveDescriptor().GetName() + "]";
DTW.Run();
DTW.Display();
}
public cFeedBackMessage Run(bool IsDisplayResults)
{
cMachineLearning MachineLearning = new cMachineLearning(/*cWell.GlobalInfo*/null);
ParamAlgoForClustering = MachineLearning.AskAndGetClusteringAlgo();
if (MinObjectsNumber == -1)
MinObjectsNumber = (cGlobalInfo.CurrentScreening.Columns * cGlobalInfo.CurrentScreening.Rows * (int)cGlobalInfo.OptionsWindow.numericUpDownSystemMinWellRatio.Value) / 100;
foreach (cPlate CurrentPlate in PlatesToProcess)
{
cExtendedTable CurrentPlateResult = null;
foreach (var item in this.DescriptorsToProcess)
{
cExtendedTable ET = CurrentPlate.GetAverageValueList(item, false);
ET.Name = item.GetName();
cExtendedTable ResultTable = this.GenerateArtifactMessage(ET, CurrentPlate);
ResultTable.ListRowNames = new List<string>();
ResultTable.ListRowNames.Add(item.GetName());
if (CurrentPlateResult == null) CurrentPlateResult = new cExtendedTable(ResultTable);
else
{
cMerge M = new cMerge();
M.IsHorizontal = false;
M.SetInputData(CurrentPlateResult, ResultTable);
M.Run();
CurrentPlateResult = M.GetOutPut();
}
}
CurrentPlateResult.Name = CurrentPlate.GetName();
CurrentPlateResult.Tag = CurrentPlate;
this.Output.Add(CurrentPlateResult);
}
this.Output.Name = "Systematic Errors (" + PlatesToProcess.Count + " plate(s))";
if (IsDisplayResults)
{
cDisplayToWindow DTW = new cDisplayToWindow();
cDesignerMultiChoices DMC = new cDesignerMultiChoices();
foreach (var item in this.Output)
{
cDesignerSplitter DS = new cDesignerSplitter();
DS.Orientation = System.Windows.Forms.Orientation.Horizontal;
DS.Title = item.Name;
cViewerTable VT = new cViewerTable();
VT.SetInputData(item);
VT.DigitNumber = 0;
VT.Run();
DS.SetInputData(VT.GetOutPut());
cViewerHeatMap VHM = new cViewerHeatMap();
VHM.SetInputData(item);
VHM.IsAutomatedMinMax = false;
VHM.Min = 0;
VHM.Max = 1;
VHM.Run();
DS.SetInputData(VHM.GetOutPut());
DS.Run();
cExtendedControl TmpXCtrl = DS.GetOutPut();
TmpXCtrl.Tag = item.Tag;
DMC.SetInputData(TmpXCtrl);
}
DMC.Run();
DTW.SetInputData(DMC.GetOutPut());
DTW.Title = "Systematic Errors [" + PlatesToProcess.Count + " plate(s)]";
DTW.Run();
DTW.Display();
//cDisplayListExtendedTable DLET = new cDisplayListExtendedTable();
//DLET.SetInputData(this.Output);
//return DLET.Run();
}
return FeedBackMessage;
}
public void PerformClassification()
{
FormForSingleCellClassifOptions FFSC = new FormForSingleCellClassifOptions();
//cGUI_ListClasses GLC = new cGUI_ListClasses();
//GLC.ClassType = eClassType.PHENOTYPE;
//GLC.IsCheckBoxes = true;
//GLC.IsSelectAll = true;
//GLC.Run(GlobalInfo);
PanelForClassSelection PhenotypeSelectionPanel = new PanelForClassSelection( true, eClassType.PHENOTYPE);
PhenotypeSelectionPanel.Height = FFSC.panelPhenoToBeClassified.Height;
FFSC.panelPhenoToBeClassified.Controls.Add(PhenotypeSelectionPanel);
PanelForClassSelection WellClassSelectionPanel = new PanelForClassSelection( true, eClassType.WELL);
WellClassSelectionPanel.Height = FFSC.panelWellToBeClassified.Height;
FFSC.panelWellToBeClassified.Controls.Add(WellClassSelectionPanel);
PanelForPlatesSelection PlatesSelectionPanel = new PanelForPlatesSelection( true, null, true);
PlatesSelectionPanel.Height = FFSC.panelWellToBeClassified.Height;
FFSC.tabPagePlates.Controls.Add(PlatesSelectionPanel);
if (FFSC.ShowDialog() != DialogResult.OK) return;
// ----------------------- Classification ------------------------------
int DescrCount = cGlobalInfo.CurrentScreening.ListDescriptors.Count;
this.UpDateNumberOfCluster();
if (NumberOfClusters == 0)
{
System.Windows.Forms.MessageBox.Show("Number of cluster is null", "Error !", MessageBoxButtons.OK, MessageBoxIcon.Hand);
return;
}
//if (FFSC.checkBoxGenerationRatio.Checked)
//{
// // first we update the descriptor
// for (int i = 0; i < this.NumberOfClusters; i++)
// GlobalInfo.CurrentScreening.ListDescriptors.AddNew(new cDescriptorType("Ratio_" + GlobalInfo.ListCellularPhenotypes[i].Name, true, 1, GlobalInfo));
//}
FormForProgress ProgressWindow = new FormForProgress();
ProgressWindow.Show();
int IdxProgress = 0;
int MaxProgress = 0;
#region Confusion Matrix init
cListExtendedTable LT = new cListExtendedTable();
cExtendedTable ConfusionMatrix = new cExtendedTable(cGlobalInfo.ListCellularPhenotypes.Count, cGlobalInfo.ListCellularPhenotypes.Count, 0);
ConfusionMatrix.Name = "Confusion Matrix (global)";
ConfusionMatrix.ListRowNames = new List<string>();
for (int i = 0; i < cGlobalInfo.ListCellularPhenotypes.Count; i++)
{
ConfusionMatrix.ListRowNames.Add(cGlobalInfo.ListCellularPhenotypes[i].Name + "*");
ConfusionMatrix[i].Name = cGlobalInfo.ListCellularPhenotypes[i].Name;
}
LT.Add(ConfusionMatrix);
for (int i = 0; i < cGlobalInfo.ListWellClasses.Count; i++)
{
cExtendedTable ConfusionMatrixTmp = new cExtendedTable(cGlobalInfo.ListCellularPhenotypes.Count, cGlobalInfo.ListCellularPhenotypes.Count, 0);
ConfusionMatrixTmp.Name = "Confusion Matrix - " + cGlobalInfo.ListWellClasses[i].Name;
ConfusionMatrixTmp.ListRowNames = new List<string>();
for (int j = 0; j < cGlobalInfo.ListCellularPhenotypes.Count; j++)
{
ConfusionMatrixTmp.ListRowNames.Add(cGlobalInfo.ListCellularPhenotypes[j].Name + "*");
ConfusionMatrixTmp[j].Name =cGlobalInfo.ListCellularPhenotypes[j].Name;
}
LT.Add(ConfusionMatrixTmp);
}
#endregion
cListPlates LP = PlatesSelectionPanel.GetListSelectedPlates();
foreach (cPlate CurrentPlateToProcess in LP /*GlobalInfo.CurrentScreening.ListPlatesAvailable*/)
MaxProgress += (int)CurrentPlateToProcess.ListActiveWells.Count;
ProgressWindow.progressBar.Maximum = MaxProgress;
FastVector attVals = new FastVector();
for (int i = 0; i < this.NumberOfClusters; i++)
attVals.addElement(i.ToString());
cPlate CurrentDispPlate = cGlobalInfo.CurrentScreening.GetCurrentDisplayPlate();
foreach (cPlate CurrentPlateToProcess in LP/* GlobalInfo.CurrentScreening.ListPlatesAvailable*/)
{
foreach (cWell TmpWell in CurrentPlateToProcess.ListActiveWells)
{
ProgressWindow.progressBar.Value = IdxProgress++;
if (TmpWell.GetCurrentClassIdx() == -1) continue;
if (WellClassSelectionPanel.ListCheckBoxes[TmpWell.GetCurrentClassIdx()].Checked == false) continue;
DataTable FinalDataTable = new DataTable();
TmpWell.AssociatedPlate.DBConnection = new cDBConnection(TmpWell.AssociatedPlate, TmpWell.SQLTableName);
TmpWell.AssociatedPlate.DBConnection.AddWellToDataTable(TmpWell, FinalDataTable, this.GlobalInfo);
cListSingleBiologicalObjects LSBO = TmpWell.AssociatedPlate.DBConnection.GetBiologicalPhenotypes(TmpWell);
//TmpWell.AssociatedPlate.DBConnection.AddWellToDataTable(TmpWell, FinalDataTable, checkBoxIncludeWellClassAsDesc.Checked, GlobalInfo);
Instances ListInstancesTOClassify = this.CreateInstancesWithoutClass(FinalDataTable);
ListInstancesTOClassify.insertAttributeAt(new weka.core.Attribute("Class", attVals), ListInstancesTOClassify.numAttributes());
ListInstancesTOClassify.setClassIndex(ListInstancesTOClassify.numAttributes() - 1);
cExtendedList ListNewClasses = new cExtendedList();
int NumInstances = ListInstancesTOClassify.numInstances();
for (int i = 0; i < NumInstances; i++)
{
// ClassId contains the new class
Instance CurrentInst = ListInstancesTOClassify.instance(i);
double classId = this.CurrentClassifier.classifyInstance(CurrentInst);
double[] ClassConfidence = this.CurrentClassifier.distributionForInstance(CurrentInst);
LSBO[i].ClassificationConfidence = ClassConfidence[(int)classId];
ListNewClasses.Add(classId);
if (CurrentPlateToProcess == CurrentDispPlate)
{
LT[0][LSBO[i].GetAssociatedPhenotype().Idx][(int)classId]++;
if (TmpWell.GetCurrentClassIdx() >= 0)
LT[TmpWell.GetCurrentClassIdx() + 1][LSBO[i].GetAssociatedPhenotype().Idx][(int)classId]++;
}
}
ProgressWindow.richTextBoxForComment.AppendText(TmpWell.GetShortInfo().Remove(TmpWell.GetShortInfo().Length - 2) + " : " + NumInstances + " objects\n");
ProgressWindow.Refresh();
// ------------- update class within the database -----------------------------
TmpWell.AssociatedPlate.DBConnection.ChangePhenotypeClass(TmpWell, ListNewClasses);
//if (FFSC.checkBoxGenerationRatio.Checked)
//{
// List<double[]> Histo = ListNewClasses.CreateHistogram(0, ListInstancesTOClassify.numClasses(), ListInstancesTOClassify.numClasses());
// cListSignature LDesc = new cListSignature();
// for (int IdxHisto = 0; IdxHisto < Histo[1].Length - 1; IdxHisto++)
// {
// Histo[1][IdxHisto] = (100.0 * Histo[1][IdxHisto]) / (double)ListInstancesTOClassify.numInstances();
// cSignature NewDesc = new cSignature(Histo[1][IdxHisto], GlobalInfo.CurrentScreening.ListDescriptors[IdxHisto + DescrCount], GlobalInfo.CurrentScreening);
// LDesc.Add(NewDesc);
// }
// TmpWell.AddSignatures(LDesc);
//}
TmpWell.AssociatedPlate.DBConnection.CloseConnection();
}
}
#region Display Report
cDesignerSplitter DS = new cDesignerSplitter();
DS.Orientation = Orientation.Vertical;
cViewertext VTEXT = new cViewertext();
VTEXT.SetInputData(ProgressWindow.richTextBoxForComment.Text);
VTEXT.Run();
cDesignerTab DT = new cDesignerTab();
DT.IsMultiline = false;
foreach (var item in LT)
{
cViewerTable VT = new cViewerTable();
VT.SetInputData(item);
VT.DigitNumber = 0;
VT.Run();
DT.SetInputData(VT.GetOutPut());
}
DT.Run();
cExtendedControl TextEC = DT.GetOutPut();
TextEC.Width = 0;
TextEC.Height = 0;
TextEC.Anchor = (System.Windows.Forms.AnchorStyles)(System.Windows.Forms.AnchorStyles.Top | System.Windows.Forms.AnchorStyles.Bottom
| System.Windows.Forms.AnchorStyles.Left
| System.Windows.Forms.AnchorStyles.Right);
DS.SetInputData(VTEXT.GetOutPut());
DS.SetInputData(TextEC);
DS.Run();
ProgressWindow.Close();
cDisplayToWindow CDT = new cDisplayToWindow();
CDT.SetInputData(DS.GetOutPut());
CDT.IsModal = true;
CDT.Title = "Phenotypic Classificaton Report";
CDT.Run();
CDT.Display();
#endregion
//if (IsKeepOriginalDesc == System.Windows.Forms.DialogResult.No)
//{
// // int DescNumToRemove = GlobalInfo.CurrentScreen.ListDescriptors.Count -
// for (int IdxDesc = 0; IdxDesc < DescrCount; IdxDesc++)
// GlobalInfo.CurrentScreening.ListDescriptors.RemoveDesc(GlobalInfo.CurrentScreening.ListDescriptors[0], GlobalInfo.CurrentScreening);
//}
cGlobalInfo.CurrentScreening.ListDescriptors.UpDateDisplay();
cGlobalInfo.CurrentScreening.UpDatePlateListWithFullAvailablePlate();
for (int idxP = 0; idxP < cGlobalInfo.CurrentScreening.ListPlatesActive.Count; idxP++)
cGlobalInfo.CurrentScreening.ListPlatesActive[idxP].UpDataMinMax();
//WindowFormForCellbyCellClassif.Close();
//WindowClusteringInfo.Close();
}
private void ToolStripMenuItem_PlateInfo(object sender, EventArgs e)
{
cDesignerSplitter DSV = new cDesignerSplitter();
DSV.Orientation = Orientation.Vertical;
cViewertext VT = new cViewertext();
string InfoPlate = "NAME: " + this.Name + "\n\n";
InfoPlate += "DIMENSIONS: " + ParentScreening.Columns + " x " + ParentScreening.Rows + " (" + ParentScreening.Rows * ParentScreening.Columns + ")\n\n";
InfoPlate += "WELLS: " + this.ListWells.Count + " (" + this.ListActiveWells.Count + " actives)\n\n";
InfoPlate += "PROPERTIES:\n\n";
foreach (var item in this.ListProperties)
{
InfoPlate += " NAME: " + item.PropertyType.Name + "\n TYPE: " + item.PropertyType.Type + "\n VALUE: ";
object ValueProp = item.GetValue();
if (ValueProp == null)
InfoPlate += "NULL\n";
else
{
//if(ValueProp.GetType()==typeof(double))
InfoPlate += ValueProp.ToString() + "\n";
//else if(ValueProp.GetType()==typeof(string))
}
InfoPlate += " INFO: " + item.Info + "\n\n";
}
VT.SetInputData(InfoPlate);
VT.Run();
DSV.SetInputData(VT.GetOutPut());
DSV.Run();
cDisplayToWindow DTW = new cDisplayToWindow();
DTW.SetInputData(VT.GetOutPut());
DTW.Title = this.Name + " (Info)";
DTW.Run();
DTW.Display();
}
public void Refresh1DScatter()
{
List<cWellClassType> ListWellClassesSelected = cGlobalInfo.ListWellClasses;
cViewerGraph1D V1D = new cViewerGraph1D();
V1D.Chart.IsSelectable = true;
V1D.Chart.LabelAxisX = "Well Index";
V1D.Chart.LabelAxisY = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName();
V1D.Chart.IsDetachable = false;
V1D.Chart.IsXGrid = true;
cExtendedList EtF = new cExtendedList();
for (int i = 0; i < cGlobalInfo.ListWellClasses.Count; i++)
{
EtF.Add(1);
}
cExtendedTable DataFromPlate = new cExtendedTable(cGlobalInfo.CurrentScreening.GetCurrentDisplayPlate().ListActiveWells,
cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx, EtF);
DataFromPlate.Name = cGlobalInfo.CurrentScreening.GetCurrentDisplayPlate().GetName();
V1D.Chart.IsShadow = true;
V1D.Chart.IsBorder = true;
//V1D.Chart.IsSelectable = true;
V1D.Chart.CurrentTitle.Tag = cGlobalInfo.CurrentScreening.GetCurrentDisplayPlate();
V1D.SetInputData(DataFromPlate);
V1D.Run();
cDesignerSplitter DS = new cDesignerSplitter();
DS.Orientation = System.Windows.Forms.Orientation.Horizontal;
DS.SetInputData(V1D.GetOutPut());
cExtendedTable NewTable = cGlobalInfo.CurrentScreening.GetCurrentDisplayPlate().ListActiveWells.Filter(ListWellClassesSelected).GetAverageDescriptorValues(cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx);
NewTable.Name = "Histogram";
cViewerStackedHistogram CV1 = new cViewerStackedHistogram();
CV1.SetInputData(NewTable);
CV1.Chart.LabelAxisX = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName();
CV1.Run();
CV1.Chart.IsDetachable = false;
DS.SetInputData(CV1.GetOutPut());
DS.Run();
cGlobalInfo.WindowHCSAnalyzer.tabPage1DView.Controls.Clear();
DS.GetOutPut().Width = cGlobalInfo.WindowHCSAnalyzer.tabPage1DView.Width;
DS.GetOutPut().Height = cGlobalInfo.WindowHCSAnalyzer.tabPage1DView.Height;
DS.GetOutPut().Controls[0].Width = cGlobalInfo.WindowHCSAnalyzer.tabPage1DView.Width;
DS.GetOutPut().Controls[0].Height = cGlobalInfo.WindowHCSAnalyzer.tabPage1DView.Height;
cGlobalInfo.WindowHCSAnalyzer.tabPage1DView.Controls.Add(DS.GetOutPut());
}
//private void ToolStripMenuItem_DisplayImage(object sender, EventArgs e)
//{
// vtkImageData ID0 = null;
// string[] ListChar = this.Info.Split('.');
// if (ListChar[ListChar.Length - 1].ToLower() == "jpg")
// {
// vtkJPEGReader JPEGReader = vtkJPEGReader.New();
// JPEGReader.SetFileName(this.Info);
// JPEGReader.Update();
// ID0 = JPEGReader.GetOutput();
// }
// if ((ListChar[ListChar.Length - 1].ToLower() == "tif") || (ListChar[ListChar.Length - 1].ToLower() == "tiff"))
// {
// vtkTIFFReader TIFFReader = vtkTIFFReader.New();
// TIFFReader.SetFileName(this.Info);
// TIFFReader.Update();
// ID0 = TIFFReader.GetOutput();
// }
// vtkImageReader Reader = vtkImageReader.New();
// Reader.SetFileName(this.Info);
// Reader.Update();
// if (Reader == null) return;
// //vtkJPEGReader TIFFReader = vtkJPEGReader.New();
// //TIFFReader.SetFileName(this.Info);
// //TIFFReader.Update();
// // cVolume3D Volume3D0 = new cVolume3D(ID0, new HCSAnalyzer.Classes._3D.cPoint3D(0, 0, 0));
// cViewerImage3D VI3D = new cViewerImage3D();
// VI3D.SetInputData(ID0);
// VI3D.Run();
// cDisplayToWindow DTW = new cDisplayToWindow();
// DTW.SetInputData(VI3D.GetOutPut());
// DTW.Title = this.Info;
// DTW.Run();
// DTW.Title = this.Info;
// DTW.Display();
//}
private void DisplayHisto(object sender, EventArgs e)
{
if ((cGlobalInfo.CurrentScreening.ListDescriptors == null) || (cGlobalInfo.CurrentScreening.ListDescriptors.Count == 0)) return;
cDisplayToWindow CDW1 = new cDisplayToWindow();
cListWells ListWellsToProcess = new cListWells(null);
List<cPlate> PlateList = new List<cPlate>();
cDesignerSplitter DS = new cDesignerSplitter();
foreach (cPlate TmpPlate in cGlobalInfo.CurrentScreening.ListPlatesActive) PlateList.Add(TmpPlate);
foreach (cPlate TmpPlate in PlateList)
foreach (cWell item in TmpPlate.ListActiveWells)
if (item.GetCurrentClassIdx() != -1) ListWellsToProcess.Add(item);
cExtendedTable NewTable2 = ListWellsToProcess.GetAverageDescriptorValues(cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx);
NewTable2.Name = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName() + " - Stacked Histogram - " + PlateList.Count + " plates";
cViewerStackedHistogram CV2 = new cViewerStackedHistogram();
CV2.SetInputData(NewTable2);
CV2.Chart.LabelAxisX = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName();
CV2.Chart.IsBorder = false;
CV2.Chart.Width = 0;
CV2.Chart.Height = 0;
StripLine AverageLine = new StripLine();
AverageLine.BackColor = Color.Red;
AverageLine.IntervalOffset = this.ListSignatures[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetValue();
AverageLine.StripWidth = 0.0001;
AverageLine.Text = this.ListSignatures[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetValue().ToString("N2");
CV2.Run();
CV2.Chart.ChartAreas[0].AxisX.StripLines.Add(AverageLine);
DS.SetInputData(CV2.GetOutPut());
PlateList.Clear();
PlateList.Add(cGlobalInfo.CurrentScreening.GetCurrentDisplayPlate());
ListWellsToProcess.Clear();
foreach (cPlate TmpPlate in PlateList)
foreach (cWell item in TmpPlate.ListActiveWells)
if (item.GetCurrentClassIdx() != -1) ListWellsToProcess.Add(item);
CDW1.Title = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName() + " - Stacked Histogram (" + PlateList[0].GetName() + ")";
cExtendedTable NewTable = ListWellsToProcess.GetAverageDescriptorValues(cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx);
NewTable.Name = CDW1.Title;
cViewerStackedHistogram CV1 = new cViewerStackedHistogram();
CV1.SetInputData(NewTable);
CV1.Chart.LabelAxisX = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName();
CV1.Chart.Width = 0;
CV1.Chart.Height = 0;
// CV1.Chart.ChartAreas[0].AxisX.Minimum = CV2.Chart.ChartAreas[0].AxisX.Minimum;
// CV1.Chart.ChartAreas[0].AxisX.Maximum = CV2.Chart.ChartAreas[0].AxisX.Maximum;
CV1.Run();
CV1.Chart.ChartAreas[0].AxisX.StripLines.Add(AverageLine);
DS.SetInputData(CV1.GetOutPut());
DS.Run();
CDW1.SetInputData(DS.GetOutPut());
CDW1.Run();
CDW1.Display();
return;
//cExtendedList Pos = new cExtendedList();
//cWell TempWell;
//int NumberOfPlates = cGlobalInfo.PlateListWindow.listBoxPlateNameToProcess.Items.Count;
//// loop on all the plate
//for (int PlateIdx = 0; PlateIdx < NumberOfPlates; PlateIdx++)
//{
// cPlate CurrentPlateToProcess = cGlobalInfo.CurrentScreening.ListPlatesActive.GetPlate((string)cGlobalInfo.PlateListWindow.listBoxPlateNameToProcess.Items[PlateIdx]);
// for (int row = 0; row < cGlobalInfo.CurrentScreening.Rows; row++)
// for (int col = 0; col < cGlobalInfo.CurrentScreening.Columns; col++)
// {
// TempWell = CurrentPlateToProcess.GetWell(col, row, false);
// if (TempWell == null) continue;
// else
// {
// if (TempWell.GetClassIdx() == this.ClassForClassif)
// Pos.Add(TempWell.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptor].GetValue());
// }
// }
//}
//if (Pos.Count == 0)
//{
// MessageBox.Show("No well of class " + cGlobalInfo.CurrentScreening.SelectedClass + " selected !", "Error", MessageBoxButtons.OK, MessageBoxIcon.Error);
// return;
//}
//List<double[]> HistoPos = Pos.CreateHistogram((int)cGlobalInfo.OptionsWindow.numericUpDownHistoBin.Value);
//if (HistoPos == null) return;
//cWindowToDisplayHisto NewWindow = new cWindowToDisplayHisto(this.Parent, Pos);
//Series SeriesPos = new Series();
//SeriesPos.ShadowOffset = 1;
//if (HistoPos.Count == 0) return;
//for (int IdxValue = 0; IdxValue < HistoPos[0].Length; IdxValue++)
//{
// SeriesPos.Points.AddXY(HistoPos[0][IdxValue], HistoPos[1][IdxValue]);
// SeriesPos.Points[IdxValue].ToolTip = HistoPos[1][IdxValue].ToString();
// if (this.ClassForClassif == -1)
// SeriesPos.Points[IdxValue].Color = Color.Black;
// else
// SeriesPos.Points[IdxValue].Color = cGlobalInfo.ListWellClasses[this.ClassForClassif].ColourForDisplay;
//}
//ChartArea CurrentChartArea = new ChartArea();
//CurrentChartArea.BorderColor = Color.Black;
//NewWindow.chartForSimpleForm.ChartAreas.Add(CurrentChartArea);
//CurrentChartArea.Axes[0].MajorGrid.Enabled = false;
//CurrentChartArea.Axes[0].Title = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptor].GetName();
//CurrentChartArea.Axes[1].Title = "Sum";
//CurrentChartArea.AxisX.LabelStyle.Format = "N2";
//NewWindow.chartForSimpleForm.TextAntiAliasingQuality = TextAntiAliasingQuality.High;
//CurrentChartArea.BackGradientStyle = GradientStyle.TopBottom;
//CurrentChartArea.BackColor = cGlobalInfo.OptionsWindow.panel1.BackColor;
//CurrentChartArea.BackSecondaryColor = Color.White;
//SeriesPos.ChartType = SeriesChartType.Column;
//// SeriesPos.Color = cGlobalInfo.CurrentScreening.GetColor(1);
//NewWindow.chartForSimpleForm.Series.Add(SeriesPos);
//NewWindow.chartForSimpleForm.ChartAreas[0].CursorX.IsUserEnabled = true;
//NewWindow.chartForSimpleForm.ChartAreas[0].CursorX.IsUserSelectionEnabled = true;
//NewWindow.chartForSimpleForm.ChartAreas[0].AxisX.ScaleView.Zoomable = true;
//NewWindow.chartForSimpleForm.ChartAreas[0].AxisX.ScrollBar.IsPositionedInside = true;
//StripLine AverageLine = new StripLine();
//AverageLine.BackColor = Color.Red;
//AverageLine.IntervalOffset = this.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptor].GetValue();
//AverageLine.StripWidth = 0.0001;
//AverageLine.Text = String.Format("{0:0.###}", this.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptor].GetValue());
//CurrentChartArea.AxisX.StripLines.Add(AverageLine);
//if (cGlobalInfo.OptionsWindow.checkBoxDisplayHistoStats.Checked)
//{
// StripLine NAverageLine = new StripLine();
// NAverageLine.BackColor = Color.Black;
// NAverageLine.IntervalOffset = Pos.Mean();
// NAverageLine.StripWidth = 0.0001;// double.Epsilon;
// CurrentChartArea.AxisX.StripLines.Add(NAverageLine);
// NAverageLine.Text = String.Format("{0:0.###}", NAverageLine.IntervalOffset);
// StripLine StdLine = new StripLine();
// StdLine.BackColor = Color.FromArgb(64, Color.Black);
// double Std = Pos.Std();
// StdLine.IntervalOffset = NAverageLine.IntervalOffset - 0.5 * Std;
// StdLine.StripWidth = Std;
// CurrentChartArea.AxisX.StripLines.Add(StdLine);
// //NAverageLine.StripWidth = 0.01;
//}
//Title CurrentTitle = new Title(this.StateForClassif + " - " + cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptor].GetName() + " histogram.");
//CurrentTitle.Font = new System.Drawing.Font("Arial", 11, FontStyle.Bold);
//NewWindow.chartForSimpleForm.Titles.Add(CurrentTitle);
//NewWindow.Text = CurrentTitle.Text;
//NewWindow.Show();
//NewWindow.chartForSimpleForm.Update();
//NewWindow.chartForSimpleForm.Show();
//NewWindow.Controls.AddRange(new System.Windows.Forms.Control[] { NewWindow.chartForSimpleForm });
//return;
}
private void PerformTestType(eTestType TestType)
{
#region extract classes of interest
cGUI_ListClasses GUI_ListClasses = new cGUI_ListClasses();
GUI_ListClasses.IsCheckBoxes = !_DescEvolCellByCellItem.Checked;
GUI_ListClasses.IsSelectAll = true;
if (GUI_ListClasses.Run().IsSucceed == false) return;
cExtendedTable ListClassSelected = GUI_ListClasses.GetOutPut();
if (ListClassSelected.Sum() < 1)
{
MessageBox.Show("At least one classe has to be selected.", "Error !", MessageBoxButtons.OK, MessageBoxIcon.Error);
return;
}
#endregion
cDesignerTab DT = new cDesignerTab();
for (int i = 0; i < cGlobalInfo.CurrentScreening.ListDescriptors.Count; i++)
{
if (cGlobalInfo.CurrentScreening.ListDescriptors[i].IsActive() == false) continue;
cDesignerSplitter DS = new cDesignerSplitter();
DS.Orientation = Orientation.Vertical;
cViewerTable VTable = new cViewerTable();
cViewertext VT = new cViewertext();
cExtendedTable FinalTable = new cExtendedTable(cGlobalInfo.ListWellClasses.Count, 0, 0);
for (int j = 0; j < cGlobalInfo.ListWellClasses.Count; j++)
{
FinalTable[j].Tag = cGlobalInfo.ListWellClasses[j];
FinalTable[j].Name = cGlobalInfo.ListWellClasses[j].Name;
}
cListWells ListWellsToProcess = new cListWells(null);
cDescriptorType CurrentDesc = cGlobalInfo.CurrentScreening.ListDescriptors[i];
// build the table
foreach (cPlate CurrentPlate in cGlobalInfo.CurrentScreening.ListPlatesActive)
{
foreach (cWell CurrentWell in CurrentPlate.ListActiveWells)
{
if ((CurrentWell.GetCurrentClassIdx() < 0) || (ListClassSelected[0][CurrentWell.GetCurrentClassIdx()] == 0)) continue;
{
FinalTable[CurrentWell.GetCurrentClassIdx()].Add(CurrentWell.GetAverageValue(CurrentDesc));
ListWellsToProcess.Add(CurrentWell);
}
}
}
cClean C = new cClean();
C.SetInputData(FinalTable);
C.Run();
cExtendedTable NewTable = C.GetOutPut();
cTwoSampleFTest TSFTest = null;
cANOVA Anova = null;
cTwoSampleUnpooledTTest TwoSampleTTest = null;
cStudent_tTest StudentTTest = null;
if (TestType == eTestType.F_TEST)
{
TSFTest = new cTwoSampleFTest();
TSFTest.SetInputData(NewTable);
TSFTest.Run();
VTable.SetInputData(TSFTest.GetOutPut());
VT.SetInputData(TSFTest.GetInfo());
}
else if (TestType == eTestType.ANOVA)
{
Anova = new cANOVA();
Anova.SetInputData(NewTable);
Anova.Run();
VTable.SetInputData(Anova.GetOutPut());
VT.SetInputData(Anova.GetInfo());
}
else if (TestType == eTestType.TWO_SAMPLES_T_TEST)
{
TwoSampleTTest = new cTwoSampleUnpooledTTest();
TwoSampleTTest.SetInputData(NewTable);
TwoSampleTTest.Run();
VTable.SetInputData(TwoSampleTTest.GetOutPut());
VT.SetInputData(TwoSampleTTest.GetInfo());
}
else if (TestType == eTestType.STUDENT_T_TEST)
{
StudentTTest = new cStudent_tTest();
StudentTTest.SetInputData(NewTable);
StudentTTest.Run();
VTable.SetInputData(StudentTTest.GetOutPut());
VT.SetInputData(StudentTTest.GetInfo());
}
VTable.DigitNumber = -1;
VTable.Run();
DS.SetInputData(VTable.GetOutPut());
VT.Run();
DS.SetInputData(VT.GetOutPut());
DS.Run();
DS.Title = cGlobalInfo.CurrentScreening.ListDescriptors[i].GetName();
cDesignerSplitter DSMain = new cDesignerSplitter();
DSMain.Orientation = Orientation.Horizontal;
DSMain.SetInputData(DS.GetOutPut());
// Compute and display associated Stacked histogram
//CDW1.Title = CompleteScreening.ListDescriptors[CompleteScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName() + " - Stacked Histogram - " + PlateList.Count + " plates";
cExtendedTable TableForHisto = ListWellsToProcess.GetAverageDescriptorValues(i);
TableForHisto.Name = "";
cViewerStackedHistogram CV1 = new cViewerStackedHistogram();
CV1.SetInputData(TableForHisto);
CV1.Chart.LabelAxisX = cGlobalInfo.CurrentScreening.ListDescriptors[i].GetName();
CV1.Chart.IsLegend = true;
CV1.Run();
DSMain.SetInputData(CV1.GetOutPut());
DSMain.Title = cGlobalInfo.CurrentScreening.ListDescriptors[i].GetName();
DSMain.Run();
DT.SetInputData(DSMain.GetOutPut());
}
DT.Run();
cDisplayToWindow DTW = new cDisplayToWindow();
DTW.SetInputData(DT.GetOutPut());
DTW.Title = "Classification Significance - " + TestType.ToString();
DTW.Run();
DTW.Display();
}
private void ToolStripMenuItem_DisplayHistograms(object sender, EventArgs e)
{
if (GlobalInfo == null) return;
for (int i = 0; i < cGlobalInfo.ListWellClasses.Count; i++)
{
if (cGlobalInfo.ListWellClasses[i].Name == this.Name)
{
Idx = i;
break;
}
}
if (Idx == -1) return;
if ((cGlobalInfo.CurrentScreening.ListDescriptors == null) || (cGlobalInfo.CurrentScreening.ListDescriptors.Count == 0)) return;
cDisplayToWindow CDW1 = new cDisplayToWindow();
cListWells ListWellsToProcess = new cListWells(null);
List<cPlate> PlateList = new List<cPlate>();
cDesignerSplitter DS = new cDesignerSplitter();
foreach (cPlate TmpPlate in cGlobalInfo.CurrentScreening.ListPlatesActive) PlateList.Add(TmpPlate);
foreach (cPlate TmpPlate in PlateList)
foreach (cWell item in TmpPlate.ListActiveWells)
if (item.GetCurrentClassIdx() == base.Idx) ListWellsToProcess.Add(item);
cExtendedTable NewTable2 = ListWellsToProcess.GetAverageDescriptorValues(cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx);
NewTable2.Name = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName() + " - Histogram - " + PlateList.Count + " plates";
cViewerStackedHistogram CV2 = new cViewerStackedHistogram();
CV2.SetInputData(NewTable2);
CV2.Chart.LabelAxisX = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName();
CV2.Chart.IsBorder = false;
CV2.Chart.Width = 0;
CV2.Chart.Height = 0;
//StripLine AverageLine = new StripLine();
//AverageLine.BackColor = Color.Red;
//AverageLine.IntervalOffset = GlobalInfo.CurrentScreen.ListDescriptors[Parent.ListDescriptors.CurrentSelectedDescriptor].GetValue();
//AverageLine.StripWidth = 0.0001;
//AverageLine.Text = this.ListDescriptors[Parent.ListDescriptors.CurrentSelectedDescriptor].GetValue().ToString("N2");
CV2.Run();
//CV2.Chart.ChartAreas[0].AxisX.StripLines.Add(AverageLine);
DS.SetInputData(CV2.GetOutPut());
PlateList.Clear();
PlateList.Add(cGlobalInfo.CurrentScreening.GetCurrentDisplayPlate());
ListWellsToProcess.Clear();
foreach (cPlate TmpPlate in PlateList)
foreach (cWell item in TmpPlate.ListActiveWells)
if (item.GetCurrentClassIdx() == Idx) ListWellsToProcess.Add(item);
CDW1.Title = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName() + " - Histogram (" + PlateList[0].GetName() + ")";
cExtendedTable NewTable = ListWellsToProcess.GetAverageDescriptorValues(cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx);
NewTable.Name = CDW1.Title;
cViewerStackedHistogram CV1 = new cViewerStackedHistogram();
CV1.SetInputData(NewTable);
CV1.Chart.LabelAxisX = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName();
CV1.Chart.Width = 0;
CV1.Chart.Height = 0;
// CV1.Chart.ChartAreas[0].AxisX.Minimum = CV2.Chart.ChartAreas[0].AxisX.Minimum;
// CV1.Chart.ChartAreas[0].AxisX.Maximum = CV2.Chart.ChartAreas[0].AxisX.Maximum;
CV1.Run();
// CV1.Chart.ChartAreas[0].AxisX.StripLines.Add(AverageLine);
DS.SetInputData(CV1.GetOutPut());
DS.Run();
CDW1.SetInputData(DS.GetOutPut());
CDW1.Run();
CDW1.Display();
return;
}
private void mannWithneyTestToolStripMenuItem_Click(object sender, EventArgs e)
{
cGUI_2ClassesSelection GUI_ListClasses = new cGUI_2ClassesSelection();
if (GUI_ListClasses.Run(this.GlobalInfo).IsSucceed == false) return;
cExtendedTable ListClassSelected = GUI_ListClasses.GetOutPut();
int IdxClassNeg = -1;
int IdxClassPos = -1;
for (int IdxC = 0; IdxC < ListClassSelected[0].Count; IdxC++)
{
if (ListClassSelected[0][IdxC] == 1) IdxClassNeg = IdxC;
if (ListClassSelected[1][IdxC] == 1) IdxClassPos = IdxC;
}
string SubTitle = "Mann-Withney (both tails)";
#region single plate and plate by plate
cDesignerTab DT = new cDesignerTab();
if ((ProcessModeCurrentPlateOnlyToolStripMenuItem.Checked) || (ProcessModeplateByPlateToolStripMenuItem.Checked)/*||(ProcessModeEntireScreeningToolStripMenuItem.Checked)*/)
{
List<cPlate> ListPlatesToProcess = new List<cPlate>();
if ((ProcessModeplateByPlateToolStripMenuItem.Checked)/*||(ProcessModeEntireScreeningToolStripMenuItem.Checked)*/)
{
foreach (cPlate TmpPlate in cGlobalInfo.CurrentScreening.ListPlatesActive)
ListPlatesToProcess.Add(TmpPlate);
}
else
ListPlatesToProcess.Add(cGlobalInfo.CurrentScreening.GetCurrentDisplayPlate());
foreach (cPlate TmpPlate in ListPlatesToProcess)
{
cListWells ListWellsToProcess1 = new cListWells(null);
cListWells ListWellsToProcess2 = new cListWells(null);
foreach (cWell item in TmpPlate.ListActiveWells)
{
if (item.GetCurrentClassIdx() != -1)
{
if (ListClassSelected[0][item.GetCurrentClassIdx()] == 1)
ListWellsToProcess1.Add(item);
if (ListClassSelected[1][item.GetCurrentClassIdx()] == 1)
ListWellsToProcess2.Add(item);
}
}
cExtendedTable NewTable1 = new cExtendedTable(ListWellsToProcess1, true);
cExtendedTable NewTable2 = new cExtendedTable(ListWellsToProcess2, true);
if ((NewTable1.Count == 0) || (NewTable1[0].Count < 5) || (NewTable2.Count == 0) || (NewTable2[0].Count < 5))
{
if (ProcessModeCurrentPlateOnlyToolStripMenuItem.Checked)
{
MessageBox.Show("Insufficient number of control wells", "Error", MessageBoxButtons.OK, MessageBoxIcon.Error);
return;
}
else
continue;
}
cExtendedList ListZ = new cExtendedList();
List<cDescriptorType> ListDescForZFactor = new List<cDescriptorType>();
List<string> ListNames = new List<string>();
int RealIdx = 0;
for (int IDxDesc = 0; IDxDesc < cGlobalInfo.CurrentScreening.ListDescriptors.Count; IDxDesc++)
{
if (!cGlobalInfo.CurrentScreening.ListDescriptors[IDxDesc].IsActive()) continue;
cExtendedTable TableForZ = new cExtendedTable();
TableForZ.Add(NewTable1[RealIdx]);
TableForZ.Add(NewTable2[RealIdx]);
RealIdx++;
cMannWithneyTest ZF = new cMannWithneyTest();
ZF.SetInputData(TableForZ);
ZF.Run();
ListZ.Add(ZF.GetOutPut()[0][1]);
ListDescForZFactor.Add(cGlobalInfo.CurrentScreening.ListDescriptors[IDxDesc]);
}
cExtendedTable ET = new cExtendedTable(new cExtendedTable(ListZ));
ET[0].ListTags = new List<object>();
ET[0].ListTags.AddRange(ListDescForZFactor);
ET.Name = TmpPlate.GetName() + "\n" + SubTitle + " - " + cGlobalInfo.ListWellClasses[IdxClassNeg].Name + " (" + NewTable1[0].Count + " wells) vs. " + cGlobalInfo.ListWellClasses[IdxClassPos].Name + " (" + NewTable2[0].Count + " wells)";
ET[0].Name = ET.Name;
cSort S = new cSort();
S.SetInputData(ET);
S.ColumnIndexForSorting = 0;
S.Run();
//ZFactorList.Sort(delegate(cSimpleSignature p1, cSimpleSignature p2) { return p1.AverageValue.CompareTo(p2.AverageValue); });
cViewerGraph1D VG1 = new cViewerGraph1D();
VG1.SetInputData(S.GetOutPut());
VG1.Chart.LabelAxisY = SubTitle;
VG1.Chart.LabelAxisX = "Descriptor";
VG1.Chart.IsZoomableX = true;
VG1.Chart.IsBar = true;
VG1.Chart.IsBorder = true;
VG1.Chart.IsDisplayValues = true;
VG1.Chart.IsShadow = true;
VG1.Chart.MarkerSize = 4;
//VG1.Chart.Max
VG1.Title = TmpPlate.GetName();
Classes.Base_Classes.General.cLineHorizontalForGraph VLZ05 = new Classes.Base_Classes.General.cLineHorizontalForGraph(.05);
VLZ05.IsAllowMoving = true;
VG1.Chart.ListHorizontalLines.Add(VLZ05);
VG1.Run();
cDesignerSplitter DS = new cDesignerSplitter();
DS.Orientation = Orientation.Vertical;
DS.SetInputData(VG1.GetOutPut());
cSort S1 = new cSort();
S1.SetInputData(ET);
S1.ColumnIndexForSorting = 0;
S1.IsAscending = false;
S1.Run();
cViewerTable VT = new cViewerTable();
VT.SetInputData(S1.GetOutPut());
VT.DigitNumber = -1;
VT.Run();
DS.SetInputData(VT.GetOutPut());
DS.Title = TmpPlate.GetName();
DS.Run();
DT.SetInputData(DS.GetOutPut());
}
DT.Run();
cDisplayToWindow CDW = new cDisplayToWindow();
CDW.SetInputData(DT.GetOutPut());//VG1.GetOutPut());
if (ProcessModeCurrentPlateOnlyToolStripMenuItem.Checked)
CDW.Title = SubTitle + " - " + ListPlatesToProcess[0].GetName();
else
CDW.Title = SubTitle + " - " + ListPlatesToProcess.Count + " plates";
CDW.Run();
CDW.Display();
}
#endregion
#region entire screening
else if (ProcessModeEntireScreeningToolStripMenuItem.Checked)
{
List<cPlate> ListPlatesToProcess = new List<cPlate>();
foreach (cPlate TmpPlate in cGlobalInfo.CurrentScreening.ListPlatesActive)
ListPlatesToProcess.Add(TmpPlate);
cExtendedList ListZ = new cExtendedList();
List<cPlate> ListPlatesForZFactor = new List<cPlate>();
foreach (cPlate TmpPlate in ListPlatesToProcess)
{
cListWells ListWellsToProcess1 = new cListWells(null);
cListWells ListWellsToProcess2 = new cListWells(null);
foreach (cWell item in TmpPlate.ListActiveWells)
{
if (item.GetCurrentClassIdx() != -1)
{
if (ListClassSelected[0][item.GetCurrentClassIdx()] == 1)
ListWellsToProcess1.Add(item);
if (ListClassSelected[1][item.GetCurrentClassIdx()] == 1)
ListWellsToProcess2.Add(item);
}
}
cExtendedTable NewTable1 = new cExtendedTable(ListWellsToProcess1, cGlobalInfo.CurrentScreening.ListDescriptors.GetDescriptorIndex(cGlobalInfo.CurrentScreening.ListDescriptors.GetActiveDescriptor()));
cExtendedTable NewTable2 = new cExtendedTable(ListWellsToProcess2, cGlobalInfo.CurrentScreening.ListDescriptors.GetDescriptorIndex(cGlobalInfo.CurrentScreening.ListDescriptors.GetActiveDescriptor()));
//cExtendedTable NewTable2 = new cExtendedTable(ListWellsToProcess2, false);
if ((NewTable1.Count == 0) || (NewTable1[0].Count < 5) || (NewTable2.Count == 0) || (NewTable2[0].Count < 5))
{
if (ProcessModeCurrentPlateOnlyToolStripMenuItem.Checked)
{
MessageBox.Show("Insufficient number of control wells", "Error", MessageBoxButtons.OK, MessageBoxIcon.Error);
return;
}
else
continue;
}
cExtendedTable TableForZ = new cExtendedTable();
TableForZ.Add(NewTable1[0]);
TableForZ.Add(NewTable2[0]);
cMannWithneyTest ZF = new cMannWithneyTest();
ZF.SetInputData(TableForZ);
ZF.Run();
double Zfactor = ZF.GetOutPut()[0][1];
ListZ.Add(Zfactor);
// update plate quality
//TmpPlate.ListProperties.UpdateValueByName("Quality", Math.Exp(Zfactor - 1));
//cProperty Prop = TmpPlate.ListProperties.FindByName("Quality");
//Prop.Info = ZF.GetInfo();
ListPlatesForZFactor.Add(TmpPlate);
}
cExtendedTable ET = new cExtendedTable(new cExtendedTable(ListZ));
ET[0].ListTags = new List<object>();
ET[0].ListTags.AddRange(ListPlatesForZFactor);
ET.Name = SubTitle + " - " + cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName() + " - " + cGlobalInfo.ListWellClasses[IdxClassNeg].Name + /*" (" + NewTable1[0].Count + " wells)*/ " vs. " + cGlobalInfo.ListWellClasses[IdxClassPos].Name;// +" (" + NewTable2[0].Count + " wells)";
ET[0].Name = ET.Name;
cViewerGraph1D VG1 = new cViewerGraph1D();
VG1.SetInputData(ET);
VG1.Chart.LabelAxisY = SubTitle;
VG1.Chart.LabelAxisX = "Plate";
VG1.Chart.IsZoomableX = true;
VG1.Chart.IsBar = true;
VG1.Chart.IsBorder = true;
VG1.Chart.IsDisplayValues = true;
VG1.Chart.IsShadow = true;
VG1.Chart.MarkerSize = 4;
Classes.Base_Classes.General.cLineHorizontalForGraph VLZ05 = new Classes.Base_Classes.General.cLineHorizontalForGraph(.05);
VLZ05.IsAllowMoving = true;
VG1.Chart.ListHorizontalLines.Add(VLZ05);
VG1.Title = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName();
VG1.Run();
cDisplayToWindow CDW = new cDisplayToWindow();
CDW.SetInputData(VG1.GetOutPut());
CDW.Title = SubTitle + " - " + ListPlatesToProcess.Count + " plates";
CDW.Run();
CDW.Display();
#endregion
}
}
void Process()
{
cDesignerTab DT = new cDesignerTab();
for (int i = 0; i < this.Input.Count; i++)
{
cExtendedTable FinalTable = this.Input[i];
cCurveForGraph CFG = new cCurveForGraph();
CFG.SetInputData(FinalTable);
CFG.Run();
//cLinearRegression LR = new cLinearRegression();
//LR.SetInputData(FinalTable);
//LR.Run();
cSigmoidFitting SF = new cSigmoidFitting();
SF.SetInputData(FinalTable);
if (SF.Run().IsSucceed == false) continue;
// double Ratio = LR.GetOutPut()[0][LR.GetOutPut().Count - 1] / SF.GetOutPut()[0][SF.GetOutPut().Count - 1];
cExtendedTable Sigmoid = SF.GetFittedRawValues(CFG.GetListXValues());
FinalTable[0] = Sigmoid[1];
cDesignerSplitter DS = new cDesignerSplitter();
//cViewerTableAsRichText VT = new cViewerTableAsRichText();
cViewerTable VT = new cViewerTable();
VT.SetInputData(SF.GetOutPut());
VT.DigitNumber = -1;
VT.Run();
cViewerGraph1D VS1 = new cViewerGraph1D();
//VS1.SetInputData(/*new cExtendedTable(AN.GetOutPut()[1])*/FinalTable);
VS1.SetInputData(new cExtendedTable(Sigmoid[1]));
VS1.AddCurve(CFG);
VS1.Chart.X_AxisValues = Sigmoid[0];//DGS.GetOutPut()[0];
VS1.Chart.IsLogAxis = true;
VS1.Chart.IsLine = true;
VS1.Chart.IsShadow = true;
VS1.Chart.Opacity = 210;
VS1.Chart.LineWidth = 3;
//VS1.Chart.IsDisplayValues = true;
VS1.Chart.LabelAxisX = "Concentration";
VS1.Chart.LabelAxisY = "Readout";
VS1.Chart.XAxisFormatDigitNumber = -1;
VS1.Chart.IsZoomableX = true;
Classes.Base_Classes.General.cLineVerticalForGraph VLForEC50 = new Classes.Base_Classes.General.cLineVerticalForGraph(SF.GetOutPut()[0][2]);
VLForEC50.AddText("EC50: " + SF.GetOutPut()[0][2].ToString("e3")/* + "\nError Ratio:" + Ratio.ToString("N4")*/);
VS1.Chart.ListVerticalLines.Add(VLForEC50);
VS1.Chart.ArraySeriesInfo = new cSerieInfoDesign[FinalTable.Count];
for (int IdxCurve = 0; IdxCurve < FinalTable.Count; IdxCurve++)
{
cSerieInfoDesign TmpSerieInfo = new cSerieInfoDesign();
// TmpSerieInfo.color = GlobalInfo.ListCellularPhenotypes[IdxCurve % GlobalInfo.ListCellularPhenotypes.Count].ColourForDisplay;
TmpSerieInfo.markerStyle = MarkerStyle.Circle;
VS1.Chart.ArraySeriesInfo[IdxCurve] = TmpSerieInfo;
}
VS1.Run();
DS.SetInputData(VS1.GetOutPut());
DS.SetInputData(VT.GetOutPut());
DS.Orientation = Orientation.Horizontal;
DS.Title = "Noise Stdev" + i * 10;
DS.Run();
DT.SetInputData(DS.GetOutPut());
}
DT.Run();
cDisplayToWindow MyDisplay = new cDisplayToWindow();
MyDisplay.SetInputData(DT.GetOutPut());
MyDisplay.Title = this.Input.Name;
MyDisplay.Run();
MyDisplay.Display();
}
private void aNOVAToolStripMenuItem1_Click(object sender, EventArgs e)
{
cGUI_ListClasses GUI_ListClasses = new cGUI_ListClasses();
GUI_ListClasses.IsCheckBoxes = true;
GUI_ListClasses.IsSelectAll = true;
if (GUI_ListClasses.Run().IsSucceed == false) return;
cExtendedTable ListClassSelected = GUI_ListClasses.GetOutPut();
string SubTitle = "ANOVA (One-Way)";
#region single plate and plate by plate
cDesignerTab DT = new cDesignerTab();
if ((ProcessModeCurrentPlateOnlyToolStripMenuItem.Checked) || (ProcessModeplateByPlateToolStripMenuItem.Checked)/*||(ProcessModeEntireScreeningToolStripMenuItem.Checked)*/)
{
List<cPlate> ListPlatesToProcess = new List<cPlate>();
if ((ProcessModeplateByPlateToolStripMenuItem.Checked)/*||(ProcessModeEntireScreeningToolStripMenuItem.Checked)*/)
{
foreach (cPlate TmpPlate in cGlobalInfo.CurrentScreening.ListPlatesActive)
ListPlatesToProcess.Add(TmpPlate);
}
else
ListPlatesToProcess.Add(cGlobalInfo.CurrentScreening.GetCurrentDisplayPlate());
foreach (cPlate TmpPlate in ListPlatesToProcess)
{
cExtendedTable NewTable1 = new cExtendedTable();
List<cListWells> ListListWells = new List<cListWells>();
int NumWells = 0;
for (int IdxClassWell = 0; IdxClassWell < ListClassSelected[0].Count; IdxClassWell++)
{
if (ListClassSelected[0][IdxClassWell] >= 1)
{
List<cWellClassType> LCT = new List<cWellClassType>();
LCT.Add(cGlobalInfo.ListWellClasses[IdxClassWell]);
cListWells TmpList = TmpPlate.ListWells.Filter(LCT);
if (TmpList.Count >= 3)
{
ListListWells.Add(TmpList);
NumWells += TmpList.Count;
}
}
}
if (ListListWells.Count <= 1)
{
if (ProcessModeCurrentPlateOnlyToolStripMenuItem.Checked)
{
MessageBox.Show("Insufficient number of control wells", "Error", MessageBoxButtons.OK, MessageBoxIcon.Error);
return;
}
else
continue;
}
cExtendedTable CompleteReport = null;
cExtendedList ListZ = new cExtendedList();
List<cDescriptorType> ListDescForZFactor = new List<cDescriptorType>();
List<string> ListNames = new List<string>();
int RealIdx = 0;
for (int IDxDesc = 0; IDxDesc < cGlobalInfo.CurrentScreening.ListDescriptors.Count; IDxDesc++)
{
if (!cGlobalInfo.CurrentScreening.ListDescriptors[IDxDesc].IsActive()) continue;
cExtendedTable TableForZ = new cExtendedTable();
foreach (var item in ListListWells)
{
List<cDescriptorType> LType = new List<cDescriptorType>();
LType.Add(cGlobalInfo.CurrentScreening.ListDescriptors[IDxDesc]);
cExtendedTable TTable = item.GetAverageDescriptorValues(LType, false, false);
TableForZ.Add(TTable[0]);
}
RealIdx++;
cANOVA ZF = new cANOVA();
ZF.SetInputData(TableForZ);
ZF.Run();
ListZ.Add(ZF.GetOutPut()[0][0]);
ZF.GetOutPut()[0].Name = cGlobalInfo.CurrentScreening.ListDescriptors[IDxDesc].GetName();
if (CompleteReport == null)
CompleteReport = new cExtendedTable(ZF.GetOutPut());
else
{
cMerge M = new cMerge();
M.IsHorizontal = true;
M.SetInputData(CompleteReport, ZF.GetOutPut());
M.Run();
CompleteReport = M.GetOutPut();
}
ListDescForZFactor.Add(cGlobalInfo.CurrentScreening.ListDescriptors[IDxDesc]);
}
cExtendedTable ET = new cExtendedTable(new cExtendedTable(ListZ));
ET[0].ListTags = new List<object>();
ET[0].ListTags.AddRange(ListDescForZFactor);
ET.Name = TmpPlate.GetName() + "\n" + SubTitle + " - " + NumWells + " wells";// +" - " +cGlobalInfo.ListWellClasses[IdxClassNeg].Name + " (" + NewTable1[0].Count + " wells) vs. " +cGlobalInfo.ListWellClasses[IdxClassPos].Name + " (" + NewTable2[0].Count + " wells)";
ET[0].Name = ET.Name;
cSort S = new cSort();
S.SetInputData(ET);
S.IsAscending = false;
S.ColumnIndexForSorting = 0;
S.Run();
//ZFactorList.Sort(delegate(cSimpleSignature p1, cSimpleSignature p2) { return p1.AverageValue.CompareTo(p2.AverageValue); });
cViewerGraph1D VG1 = new cViewerGraph1D();
VG1.SetInputData(S.GetOutPut());
VG1.Chart.LabelAxisY = SubTitle;
VG1.Chart.LabelAxisX = "Descriptor";
VG1.Chart.IsZoomableX = true;
VG1.Chart.IsBar = true;
VG1.Chart.IsBorder = true;
VG1.Chart.IsDisplayValues = true;
VG1.Chart.IsShadow = true;
VG1.Chart.MarkerSize = 4;
//VG1.Chart.Max
VG1.Title = TmpPlate.GetName();
// Classes.Base_Classes.General.cLineHorizontalForGraph VLZ05 = new Classes.Base_Classes.General.cLineHorizontalForGraph(.05);
// VLZ05.IsAllowMoving = true;
// VG1.Chart.ListHorizontalLines.Add(VLZ05);
VG1.Run();
cDesignerSplitter DS = new cDesignerSplitter();
DS.Orientation = Orientation.Vertical;
DS.SetInputData(VG1.GetOutPut());
cTranspose T = new cTranspose();
T.SetInputData(CompleteReport);
T.Run();
CompleteReport = T.GetOutPut();
CompleteReport[0].Name = "P-Value";
CompleteReport[1].Name = "Is significant ?";
cSort S1 = new cSort();
S1.SetInputData(CompleteReport);
S1.ColumnIndexForSorting = 0;
S1.IsAscending = true;
S1.Run();
cViewerTable VT = new cViewerTable();
VT.SetInputData(S1.GetOutPut());
VT.DigitNumber = -1;
VT.Run();
DS.SetInputData(VT.GetOutPut());
DS.Title = TmpPlate.GetName();
DS.Run();
DT.SetInputData(DS.GetOutPut());
}
DT.Run();
cDisplayToWindow CDW = new cDisplayToWindow();
CDW.SetInputData(DT.GetOutPut());//VG1.GetOutPut());
if (ProcessModeCurrentPlateOnlyToolStripMenuItem.Checked)
CDW.Title = SubTitle + " - " + ListPlatesToProcess[0].GetName();
else
CDW.Title = SubTitle + " - " + ListPlatesToProcess.Count + " plates";
CDW.Run();
CDW.Display();
}
#endregion
#region entire screening
else if (ProcessModeEntireScreeningToolStripMenuItem.Checked)
{
List<cPlate> ListPlatesToProcess = new List<cPlate>();
foreach (cPlate TmpPlate in cGlobalInfo.CurrentScreening.ListPlatesActive)
ListPlatesToProcess.Add(TmpPlate);
cExtendedList ListZ = new cExtendedList();
List<cPlate> ListPlatesForZFactor = new List<cPlate>();
foreach (cPlate TmpPlate in ListPlatesToProcess)
{
cListWells ListWellsToProcess1 = new cListWells(null);
cListWells ListWellsToProcess2 = new cListWells(null);
foreach (cWell item in TmpPlate.ListActiveWells)
{
if (item.GetCurrentClassIdx() != -1)
{
if (ListClassSelected[0][item.GetCurrentClassIdx()] == 1)
ListWellsToProcess1.Add(item);
if (ListClassSelected[1][item.GetCurrentClassIdx()] == 1)
ListWellsToProcess2.Add(item);
}
}
cExtendedTable NewTable1 = new cExtendedTable(ListWellsToProcess1, cGlobalInfo.CurrentScreening.ListDescriptors.GetDescriptorIndex(cGlobalInfo.CurrentScreening.ListDescriptors.GetActiveDescriptor()));
cExtendedTable NewTable2 = new cExtendedTable(ListWellsToProcess2, cGlobalInfo.CurrentScreening.ListDescriptors.GetDescriptorIndex(cGlobalInfo.CurrentScreening.ListDescriptors.GetActiveDescriptor()));
//cExtendedTable NewTable2 = new cExtendedTable(ListWellsToProcess2, false);
if ((NewTable1.Count == 0) || (NewTable1[0].Count < 2) || (NewTable2.Count == 0) || (NewTable2[0].Count < 2))
{
if (ProcessModeCurrentPlateOnlyToolStripMenuItem.Checked)
{
MessageBox.Show("Insufficient number of control wells", "Error", MessageBoxButtons.OK, MessageBoxIcon.Error);
return;
}
else
continue;
}
cExtendedTable TableForZ = new cExtendedTable();
TableForZ.Add(NewTable1[0]);
TableForZ.Add(NewTable2[0]);
cStudent_tTest ZF = new cStudent_tTest();
ZF.SetInputData(TableForZ);
ZF.Run();
double Zfactor = ZF.GetOutPut()[0][1];
ListZ.Add(Zfactor);
// update plate quality
//TmpPlate.ListProperties.UpdateValueByName("Quality", Math.Exp(Zfactor - 1));
//cProperty Prop = TmpPlate.ListProperties.FindByName("Quality");
//Prop.Info = ZF.GetInfo();
ListPlatesForZFactor.Add(TmpPlate);
}
cExtendedTable ET = new cExtendedTable(new cExtendedTable(ListZ));
ET[0].ListTags = new List<object>();
ET[0].ListTags.AddRange(ListPlatesForZFactor);
ET.Name = SubTitle + " - " + cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName();// +" - " +cGlobalInfo.ListWellClasses[IdxClassNeg].Name + /*" (" + NewTable1[0].Count + " wells)*/ " vs. " +cGlobalInfo.ListWellClasses[IdxClassPos].Name;// +" (" + NewTable2[0].Count + " wells)";
ET[0].Name = ET.Name;
cViewerGraph1D VG1 = new cViewerGraph1D();
VG1.SetInputData(ET);
VG1.Chart.LabelAxisY = SubTitle;
VG1.Chart.LabelAxisX = "Plate";
VG1.Chart.IsZoomableX = true;
VG1.Chart.IsBar = true;
VG1.Chart.IsBorder = true;
VG1.Chart.IsDisplayValues = true;
VG1.Chart.IsShadow = true;
VG1.Chart.MarkerSize = 4;
VG1.Title = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName();
VG1.Run();
cDisplayToWindow CDW = new cDisplayToWindow();
CDW.SetInputData(VG1.GetOutPut());
CDW.Title = SubTitle + " - " + ListPlatesToProcess.Count + " plates";
CDW.Run();
CDW.Display();
#endregion
}
}
public cExtendedControl GetOutPut()
{
if ((IsDisplayInfo) && (Sender != null))
{
cDesignerSplitter SplitterForInfo = new cDesignerSplitter();
SplitterForInfo.Orientation = Orientation.Horizontal;
SplitterForInfo.SetInputData(CurrentPanel);
cViewertext VT = new cViewertext();
VT.SetInputData(Sender.GetInfo());
VT.Run();
SplitterForInfo.SetInputData(VT.GetOutPut());
SplitterForInfo.Run();
return SplitterForInfo.GetOutPut();
}
return CurrentPanel;
}
private void dToolStripMenuItem_Click(object sender, EventArgs e)
{
cFeedBackMessage MessageReturned;
cGUI_ListClasses GUI_ListClasses = new cGUI_ListClasses();
GUI_ListClasses.IsCheckBoxes = true;
GUI_ListClasses.IsSelectAll = true;
if (GUI_ListClasses.Run().IsSucceed == false) return;
cExtendedList ListClassSelected = GUI_ListClasses.GetOutPut()[0];
List<cWellClassType> ListWellClassesSelected = new List<cWellClassType>();
foreach (var item in ListClassSelected.ListTags)
{
ListWellClassesSelected.Add((cWellClassType)(item));
}
cViewerGraph1D V1D = new cViewerGraph1D();
V1D.Chart.IsSelectable = true;
V1D.Chart.LabelAxisX = "Well Index";
V1D.Chart.LabelAxisY = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName();
V1D.Chart.IsXGrid = true;
if (ProcessModeCurrentPlateOnlyToolStripMenuItem.Checked)
{
cExtendedTable DataFromPlate = new cExtendedTable(cGlobalInfo.CurrentScreening.GetCurrentDisplayPlate().ListActiveWells,
cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx, ListClassSelected);
DataFromPlate.Name = cGlobalInfo.CurrentScreening.GetCurrentDisplayPlate().GetName();
V1D.Chart.IsShadow = true;
V1D.Chart.IsBorder = true;
//V1D.Chart.IsSelectable = true;
V1D.Chart.CurrentTitle.Tag = cGlobalInfo.CurrentScreening.GetCurrentDisplayPlate();
V1D.SetInputData(DataFromPlate);
V1D.Run();
cDesignerSplitter DS = new cDesignerSplitter();
DS.Orientation = System.Windows.Forms.Orientation.Horizontal;
DS.SetInputData(V1D.GetOutPut());
cExtendedTable NewTable = cGlobalInfo.CurrentScreening.GetCurrentDisplayPlate().ListActiveWells.Filter(ListWellClassesSelected).GetAverageDescriptorValues(cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx);
NewTable.Name = "Histogram";
cViewerStackedHistogram CV1 = new cViewerStackedHistogram();
CV1.SetInputData(NewTable);
CV1.Chart.LabelAxisX = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName();
CV1.Run();
DS.SetInputData(CV1.GetOutPut());
DS.Run();
cDisplayToWindow Disp0 = new cDisplayToWindow();
Disp0.SetInputData(DS.GetOutPut());
Disp0.Title = "Scatter points graph - " + DataFromPlate[0].Count + " wells.";
if (!Disp0.Run().IsSucceed) return;
Disp0.Display();
}
else if (ProcessModeEntireScreeningToolStripMenuItem.Checked)
{
V1D.Chart.MarkerSize = 5;
V1D.Chart.IsBorder = false;
V1D.Chart.IsShadow = false;
cListWells ListWell = new cListWells(null);
int IdxWellForPlateSeparator = 0;
foreach (cPlate TmpPlate in cGlobalInfo.CurrentScreening.ListPlatesActive)
{
foreach (cWell TmpWell in TmpPlate.ListActiveWells)
{
int ClassTmp = TmpWell.GetCurrentClassIdx();
if ((ClassTmp == -1) || (GUI_ListClasses.GetOutPut()[0][TmpWell.GetCurrentClassIdx()] == 0)) continue;
ListWell.Add(TmpWell);
IdxWellForPlateSeparator++;
}
if (cGlobalInfo.OptionsWindow.FFAllOptions.checkBoxDisplayPlatesVerticalLines.Checked)
{
Classes.Base_Classes.General.cLineVerticalForGraph VL = new Classes.Base_Classes.General.cLineVerticalForGraph(IdxWellForPlateSeparator + 0.5);
VL.IsAllowMoving = false;
V1D.Chart.ListVerticalLines.Add(VL);
}
}
cExtendedTable DataFromPlate = new cExtendedTable(ListWell,
cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx, ListClassSelected);
DataFromPlate.Name = cGlobalInfo.CurrentScreening.GetName() + " - " + cGlobalInfo.CurrentScreening.ListPlatesActive.Count + " plates";
int MaxNumberOfPts = (int)cGlobalInfo.OptionsWindow.FFAllOptions.numericUpDownMinNumPointForFastDisp.Value;
if (ListWell.Count > MaxNumberOfPts)
{
cGlobalInfo.WindowHCSAnalyzer.richTextBoxConsole.AppendText("\n" + V1D.Title + ": Number of Wells is Higher than " + MaxNumberOfPts + " => Switching to FastPoints Mode.\n");
V1D.Chart.ISFastPoint = true;
}
V1D.SetInputData(DataFromPlate);
V1D.Run();
cDesignerSplitter DS = new cDesignerSplitter();
DS.Orientation = System.Windows.Forms.Orientation.Horizontal;
DS.SetInputData(V1D.GetOutPut());
cExtendedTable NewTable = ListWell.GetAverageDescriptorValues(cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx);
NewTable.Name = "Histogram";
cViewerStackedHistogram CV1 = new cViewerStackedHistogram();
CV1.SetInputData(NewTable);
CV1.Chart.LabelAxisX = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName();
CV1.Run();
DS.SetInputData(CV1.GetOutPut());
DS.Run();
cDisplayToWindow Disp0 = new cDisplayToWindow();
Disp0.SetInputData(DS.GetOutPut());
Disp0.Title = "Scatter points graph - " + DataFromPlate[0].Count + " wells.";
if (!Disp0.Run().IsSucceed) return;
Disp0.Display();
}
else if (ProcessModeplateByPlateToolStripMenuItem.Checked)
{
cDesignerTab CDT = new cDesignerTab();
foreach (cPlate TmpPlate in cGlobalInfo.CurrentScreening.ListPlatesActive)
{
cExtendedTable DataFromPlate = new cExtendedTable(TmpPlate.ListActiveWells,
cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx, ListClassSelected);
DataFromPlate.Name = TmpPlate.GetName();
V1D = new cViewerGraph1D();
V1D.Chart.IsSelectable = true;
V1D.Chart.LabelAxisX = "Well Index";
V1D.Chart.LabelAxisY = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName();
V1D.Chart.IsXGrid = true;
V1D.Chart.CurrentTitle.Tag = TmpPlate;
V1D.SetInputData(DataFromPlate);
V1D.Title = TmpPlate.GetName();
V1D.Run();
cDesignerSplitter DS = new cDesignerSplitter();
DS.Orientation = System.Windows.Forms.Orientation.Horizontal;
DS.SetInputData(V1D.GetOutPut());
cExtendedTable NewTable = TmpPlate.ListActiveWells.Filter(ListWellClassesSelected).GetAverageDescriptorValues(cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx);
NewTable.Name = "Histogram";
cViewerStackedHistogram CV1 = new cViewerStackedHistogram();
CV1.SetInputData(NewTable);
CV1.Chart.LabelAxisX = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName();
CV1.Run();
DS.Title = TmpPlate.GetName();
DS.SetInputData(CV1.GetOutPut());
DS.Run();
CDT.SetInputData(DS.GetOutPut());
}
CDT.Run();
cDisplayToWindow Disp0 = new cDisplayToWindow();
Disp0.SetInputData(CDT.GetOutPut());
Disp0.Title = "Scatter points graphs";
if (!Disp0.Run().IsSucceed) return;
Disp0.Display();
}
}
void Process()
{
cExtendedTable NewTable1 = null;
string DescName = "";
if (this.InputWells != null)
{
NewTable1 = new cExtendedTable(this.InputWells, cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx);
DescName = cGlobalInfo.CurrentScreening.ListDescriptors[cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx].GetName();
}
else if (this.InputTable != null)
{
NewTable1 = this.InputTable;
}
cDesignerTab NormalityTestTabs = new cDesignerTab();
cNormalityAndersonDarling NAD = new cNormalityAndersonDarling();
NAD.SetInputData(NewTable1);
NAD.Run();
cExtendedTable TNAD = NAD.GetOutPut();
TNAD[0].Name = "Anderson-Darling Test";
cViewerTable VTNAD = new cViewerTable();
VTNAD.SetInputData(TNAD);
VTNAD.Sender = NAD;
VTNAD.IsDisplayInfo = true;
VTNAD.DigitNumber = -1;
VTNAD.Run();
cExtendedControl AndersonCtrl = VTNAD.GetOutPut();
AndersonCtrl.Title = TNAD[0].Name;
cNormalityJarqueBera NJB = new cNormalityJarqueBera();
NJB.SetInputData(NewTable1);
NJB.Run();
cExtendedTable TmpTest = NJB.GetOutPut();
TmpTest[0].Name = "Jarque-Bera Test";
cViewerTable VT = new cViewerTable();
VT.SetInputData(TmpTest);
VT.Sender = NJB;
VT.IsDisplayInfo = true;
VT.DigitNumber = -1;
VT.Run();
cExtendedControl JarqueCtrl = VT.GetOutPut();
JarqueCtrl.Title = TmpTest[0].Name;
NormalityTestTabs.SetInputData(JarqueCtrl);
NormalityTestTabs.SetInputData(AndersonCtrl);
NormalityTestTabs.Run();
//cExtendedControl ControlForTab = CADP.GetOutPut();
//NormalityTestTabs.Title = TmpPlate.Name;
cDesignerSplitter MainDS = new cDesignerSplitter();
MainDS.Orientation = Orientation.Vertical;
cDesignerSplitter DS = new cDesignerSplitter();
DS.Orientation = Orientation.Horizontal;
cNormalProbabilityPlot NPP = new cNormalProbabilityPlot();
NPP.SetInputData(NewTable1);
NPP.IdxColumnToProcess = 0;
NPP.Run();
cViewer2DScatterPoint V2DS = new cViewer2DScatterPoint();
cExtendedTable TableToDisp = NPP.GetOutPut();
TableToDisp.Name = "";
V2DS.Chart.IsSelectable = true;
V2DS.Chart.IsBorder = false;
V2DS.Chart.IsShadow = false;
V2DS.Chart.IsXGrid = true;
V2DS.Chart.IsYGrid = true;
V2DS.Chart.IsDisplayTrendLine = true;
V2DS.SetInputData(TableToDisp);
V2DS.Run();
V2DS.Chart.CurrentTitle.Text = "Normal Probability Plot\n" + DescName + " - " + NewTable1[0].Count + " points";
DS.SetInputData(V2DS.GetOutPut());
cViewerStackedHistogram VSH = new cViewerStackedHistogram();
cExtendedTable NewTable = null;
if (this.InputWells != null)
{
NewTable = this.InputWells.GetAverageDescriptorValues(cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx);
}
else
{
NewTable = this.InputTable;
}
NewTable.Name = DescName + " - Stacked Histogram - " + NewTable1[0].Count + " values";
VSH.SetInputData(NewTable);
VSH.Chart.LabelAxisX = DescName;
VSH.Run();
DS.SetInputData(VSH.GetOutPut());
DS.Run();
cExtendedControl TextEC = NormalityTestTabs.GetOutPut();
TextEC.Width = 0;
TextEC.Height = 0;
TextEC.Anchor = (System.Windows.Forms.AnchorStyles)(System.Windows.Forms.AnchorStyles.Top | System.Windows.Forms.AnchorStyles.Bottom
| System.Windows.Forms.AnchorStyles.Left
| System.Windows.Forms.AnchorStyles.Right);
MainDS.SetInputData(TextEC);
MainDS.SetInputData(DS.GetOutPut());
MainDS.Run();
this.Output = MainDS.GetOutPut();
}
