private void buttonGenerate_Click(object sender, EventArgs e)
{
if (MessageBox.Show("This process will generate a new screening and delete the current one. Are you sure?", "Warning", MessageBoxButtons.OKCancel, MessageBoxIcon.Warning) != System.Windows.Forms.DialogResult.OK)
return;
// Now Let's write the CSV file
//string FilePath = "c:\\test.csv";
//System.IO.StreamWriter file = new System.IO.StreamWriter(FilePath);
//file.WriteLine("PlateName,WellPosition,ImageNumbers");
//foreach (var itemPlate in MainScreenDico)
//{
// foreach (var itemWell in itemPlate.Value)
// {
// string Line = itemPlate.Key.ToString()+","+itemWell.Key.ToString()+","+itemWell.Value;
// file.WriteLine(Line);
// }
//}
//file.Close();
// return;
// if (this.CurrentScreening == null)
string[] ForNames = this.textBoxImageRoot.Text.Split('\\');
cGlobalInfo.CurrentScreening = new cScreening(ForNames[ForNames.Length - 1]);
cGlobalInfo.CurrentScreening.Columns = 24;
cGlobalInfo.CurrentScreening.Rows = 16;
cGlobalInfo.CurrentScreening.ListDescriptors.Clean();
cGlobalInfo.CurrentScreening.ListDescriptors.AddNew(new cDescriptorType("ImageNumbers", true, 1));
foreach (var itemPlate in MainScreenDico)
{
cPlate CurrentPlate = cGlobalInfo.CurrentScreening.GetPlateIfNameIsContainIn(itemPlate.Key);
if (CurrentPlate == null)
{
CurrentPlate = new cPlate(itemPlate.Key, cGlobalInfo.CurrentScreening);
cGlobalInfo.CurrentScreening.AddPlate(CurrentPlate);
}
else
{
this.richTextBoxReport.AppendText("----------- Error ----------\nPlate " + itemPlate.Key + " has already been processed. Plate skipped !\n");
continue;
}
foreach (var itemWell in itemPlate.Value)
{
cListSignature LDesc = new cListSignature();
cSignature CurrentDescriptor = new cSignature((double)(int)itemWell.Value, cGlobalInfo.CurrentScreening.ListDescriptors[0/* + ShiftIdx*/], cGlobalInfo.CurrentScreening);
LDesc.Add(CurrentDescriptor);
int[] Pos = new int[2];
Pos = cGlobalInfo.WindowHCSAnalyzer.ConvertPosition(itemWell.Key.ToString());
cWell CurrentWell = new cWell(LDesc, Pos[0], Pos[1], cGlobalInfo.CurrentScreening, CurrentPlate);
CurrentPlate.AddWell(CurrentWell);
}
}
cGlobalInfo.CurrentScreening.UpDatePlateListWithFullAvailablePlate();
foreach (var item in cGlobalInfo.CurrentScreening.ListPlatesActive)
item.UpDataMinMax();
cGlobalInfo.WindowHCSAnalyzer.StartingUpDateUI();
cGlobalInfo.WindowHCSAnalyzer.toolStripcomboBoxPlateList.Items.Clear();
for (int IdxPlate = 0; IdxPlate < cGlobalInfo.CurrentScreening.ListPlatesActive.Count; IdxPlate++)
{
string Name = cGlobalInfo.CurrentScreening.ListPlatesActive.GetPlate(IdxPlate).GetName();
cGlobalInfo.WindowHCSAnalyzer.toolStripcomboBoxPlateList.Items.Add(Name);
cGlobalInfo.WindowHCSAnalyzer.PlateListWindow.listBoxPlateNameToProcess.Items.Add(Name);
cGlobalInfo.WindowHCSAnalyzer.PlateListWindow.listBoxAvaliableListPlates.Items.Add(Name);
cGlobalInfo.CurrentScreening.ListPlatesActive.GetPlate(IdxPlate).UpDataMinMax();
}
cGlobalInfo.CurrentScreening.CurrentDisplayPlateIdx = 0;
cGlobalInfo.CurrentScreening.SetSelectionType(cGlobalInfo.WindowHCSAnalyzer.comboBoxClass.SelectedIndex - 1);
cGlobalInfo.CurrentScreening.ListDescriptors.CurrentSelectedDescriptorIdx = 0;
cGlobalInfo.WindowHCSAnalyzer.UpdateUIAfterLoading();
// now Image Analysis
// first create a descriptor for each readout
cDescriptorType TmpDescType = new cDescriptorType("Total_Intensity_0", true, 1);
cGlobalInfo.CurrentScreening.ListDescriptors.AddNew(TmpDescType);
//FormForPlateDimensions PlateDim = new FormForPlateDimensions();
//PlateDim.checkBoxAddCellNumber.Visible = true;
//PlateDim.checkBoxIsOmitFirstColumn.Visible = true;
//PlateDim.labelHisto.Visible = true;
//PlateDim.numericUpDownHistoSize.Visible = true;
FormForDoubleProgress WindowProgress = new FormForDoubleProgress();
WindowProgress.Show();
WindowProgress.progressBarPlate.Maximum = cGlobalInfo.CurrentScreening.ListPlatesAvailable.Count;
WindowProgress.progressBarPlate.Value = 0;
WindowProgress.progressBarPlate.Refresh();
int IdxPlateProg = 0;
foreach (cPlate TmpPlate in cGlobalInfo.CurrentScreening.ListPlatesAvailable)
{
WindowProgress.progressBarPlate.Value++;
WindowProgress.progressBarPlate.Refresh();
WindowProgress.labelPlateIdx.Text = (IdxPlateProg + 1) + " / " + cGlobalInfo.CurrentScreening.ListPlatesAvailable.Count;
WindowProgress.progressBarWell.Value = 0;
WindowProgress.progressBarWell.Maximum = TmpPlate.ListWells.Count;
#region modif
//List<cImageMetaInfo> ListImageMetaInfo = new List<cImageMetaInfo>();
//string Pathds = this.textBoxImageRoot.Text;
//string XMLFile = Pathds+"\\"+ TmpPlate.GetName()+"\\MeasurementDetail.mrf";
//int NumberOfChannels = (int)this.numericUpDownChannelNumber.Value;
//List<string> ListFiles = Directory.GetFiles(Pathds + "\\" + TmpPlate.GetName(), "*C0*.tif", SearchOption.AllDirectories).ToList();
//ListFiles.Sort(); //OrderBy(q=>q).ToList();
//if (File.Exists(XMLFile))
//{
// XmlDocument xmlDoc = new XmlDocument();
// xmlDoc.Load(XMLFile);
// for (int Channel = 0; Channel < NumberOfChannels; Channel++)
// {
// //string FinalName = ListChannels[Channel];
// cImageMetaInfo TmpMetaInfo = new cImageMetaInfo();
// //TmpMetaInfo.FileName = FinalName;
// TmpMetaInfo.Name = xmlDoc.ChildNodes[1].ChildNodes[1].Attributes["bts:Ch"].Value;//ListChannelNames[Channel];
// TmpMetaInfo.ResolutionX = double.Parse(xmlDoc.ChildNodes[1].ChildNodes[1].Attributes["bts:HorizontalPixelDimension"].Value);//1;
// TmpMetaInfo.ResolutionY = double.Parse(xmlDoc.ChildNodes[1].ChildNodes[1].Attributes["bts:VerticalPixelDimension"].Value);//1;
// TmpMetaInfo.ResolutionZ = 1;
// ListImageMetaInfo.Add(TmpMetaInfo);
// }
//}
//else
//{
// for (int Channel = 0; Channel < NumberOfChannels; Channel++)
// {
// //string FinalName = ListChannels[Channel];
// cImageMetaInfo TmpMetaInfo = new cImageMetaInfo();
// //TmpMetaInfo.FileName = FinalName;
// // TmpMetaInfo.Name = ListChannelNames[Channel];
// TmpMetaInfo.ResolutionX = 1;
// TmpMetaInfo.ResolutionY = 1;
// TmpMetaInfo.ResolutionZ = 1;
// ListImageMetaInfo.Add(TmpMetaInfo);
// }
//}
#endregion
int IdxWell = 0;
foreach (cWell TmpWell in TmpPlate.ListWells)
{
WindowProgress.labelWellIdx.Text = (IdxWell + 1) + " / " + TmpPlate.ListWells.Count;
WindowProgress.progressBarWell.Value = IdxWell + 1;
WindowProgress.progressBarWell.Refresh();
WindowProgress.Refresh();
int NumberOfFieldProcessed = 0;
double AverageValue = 0;
for (int IdxField = 0; IdxField < this.numericUpDownFieldNumber.Value; IdxField++)
{
//var watch = Stopwatch.StartNew();
cGetImageFromWells IFW = new cGetImageFromWells();
IFW.SetInputData(new cListWells(TmpWell));
IFW.ListProperties.FindByName("Field").SetNewValue(IdxField);
IFW.Run();
cImage TmpImage = IFW.GetOutPut();
//watch.Stop();
//cGlobalInfo.WindowHCSAnalyzer.richTextBoxConsole.AppendText("IFW = "+watch.ElapsedMilliseconds + "\n");
if ((TmpImage == null) || (TmpImage.GetNumChannels() == 0))
{
cGlobalInfo.WindowHCSAnalyzer.richTextBoxConsole.AppendText("Error while loading [Plate] " + TmpPlate.GetName() + " [Well] " + TmpWell.GetPos() + " [Field] " + IdxField + "\n");
continue;
}
else
{
AverageValue = 25; //TmpImage.SingleChannelImage[0].Data.Sum();
}
IFW.GetOutPut().Dispose();
//GC.Collect();
NumberOfFieldProcessed++;
}
if (NumberOfFieldProcessed != 0)
AverageValue /= (double)NumberOfFieldProcessed;
else
AverageValue = 0;
cListSignature LDesc = new cListSignature();
cSignature NewDesc = new cSignature(AverageValue, TmpDescType, cGlobalInfo.CurrentScreening);
LDesc.Add(NewDesc);
TmpWell.AddSignatures(LDesc);
IdxWell++;
}
IdxPlateProg++;
}
WindowProgress.Dispose();
cGlobalInfo.CurrentScreening.ListDescriptors.UpDateDisplay();
cGlobalInfo.CurrentScreening.UpDatePlateListWithFullAvailablePlate();
for (int idxP = 0; idxP < cGlobalInfo.CurrentScreening.ListPlatesActive.Count; idxP++)
cGlobalInfo.CurrentScreening.ListPlatesActive[idxP].UpDataMinMax();
}
public cExtendedControl BuildChartForImage()
{
// Panel TmpPanel = new Panel();
int Field = 0;
cViewerImage MyImageViewer = new cViewerImage();
cGetImageFromWells GIFW = new cGetImageFromWells();
GIFW.SetInputData(new cListWells(this));
if(!GIFW.Run().IsSucceed) return null;
MyImageViewer.SetInputData(GIFW.GetOutPut());
MyImageViewer.Run();
int GutterSize = (int)cGlobalInfo.OptionsWindow.FFAllOptions.numericUpDownGutter.Value;
MyImageViewer.GetOutPut().Location = new System.Drawing.Point(
(int)((PosX - 1) * (cGlobalInfo.SizeHistoWidth + GutterSize) + cGlobalInfo.SizeHistoWidth),
(int)((PosY - 1) * (cGlobalInfo.SizeHistoHeight + GutterSize) + cGlobalInfo.SizeHistoHeight));
MyImageViewer.GetOutPut().BackColor = this.GetClassColor();//cGlobalInfo.ListClasses[this.ClassForClassif].ColourForDisplay;// CurrentColor;
MyImageViewer.GetOutPut().Width = (int)cGlobalInfo.SizeHistoWidth;
MyImageViewer.GetOutPut().Height = (int)cGlobalInfo.SizeHistoHeight;
//PictureBox PB = new PictureBox();
//PB.Width = (int)cGlobalInfo.SizeHistoWidth-4;
//PB.Height = (int)cGlobalInfo.SizeHistoHeight-4;
//PB.Location = new Point(2, 2);
//PB.BackColor = this.GetClassColor();
//PB.BorderStyle = BorderStyle.None;
//PB.SizeMode = System.Windows.Forms.PictureBoxSizeMode.StretchImage;
//PB.MouseClick += new System.Windows.Forms.MouseEventHandler(this.AssociatedChart_MouseClick);
//PB.MouseDown += new MouseEventHandler(AssociatedChart_MouseDown);
//PB.AllowDrop = true;
//PB.DragDrop += new DragEventHandler(AssociatedChart_DragDrop);
//PB.DragEnter += new DragEventHandler(AssociatedChart_DragEnter);
if (this.Thumbnail == null)
{
cGetImageFromWells GIFWT = new cGetImageFromWells();
GIFWT.SetInputData(new cListWells(this));
if (!GIFWT.Run().IsSucceed) return null;
this.Thumbnail = GIFWT.GetOutPut().GetBitmap(1, null, null);
}
// PB.Image = this.Thumbnail;
// TmpPanel.Controls.Add(PB);
//TmpPanel.
//.GetToolTipText += new System.EventHandler<ToolTipEventArgs>(this.AssociatedChart_GetToolTipText);
return MyImageViewer.GetOutPut();
}
cFeedBackMessage Process()
{
if (base.Start() == false)
{
base.FeedBackMessage.IsSucceed = false;
return base.FeedBackMessage;
}
object _firstValue = base.ListProperties.FindByName("Include Images?");
bool IsIncludeImages = false;
if (_firstValue == null)
{
base.GenerateError("-Include Images?- not found !");
return base.FeedBackMessage;
}
try
{
cProperty TmpProp = (cProperty)_firstValue;
IsIncludeImages = (bool)TmpProp.GetValue();
}
catch (Exception)
{
base.GenerateError("-Include Images?- cast didn't work");
return base.FeedBackMessage;
}
this.Output = this.Input.GetAverageDescriptorValuesFull();
if (IsIncludeImages)
{
this.Output.ListTags = new List<object>();
foreach (cWell item in Input)
{
cGetImageFromWells GIFW = new cGetImageFromWells();
GIFW.SetInputData(new cListWells(this));
if (!GIFW.Run().IsSucceed) continue;
cImage AccessedImage = GIFW.GetOutPut();
List<byte[][]> ListLUTs = new List<byte[][]>();
cLUT LUT = new cLUT();
ListLUTs.Add(LUT.LUT_LINEAR_RED);
ListLUTs.Add(LUT.LUT_LINEAR_GREEN);
ListLUTs.Add(LUT.LUT_LINEAR_BLUE);
List<double> ListMin = new List<double>();
ListMin.Add(200);
ListMin.Add(200);
List<double> ListMax = new List<double>();
ListMax.Add(65530);
ListMax.Add(5000);
cImageDisplayProperties IP = new cImageDisplayProperties();
IP.ListMax = ListMax;
IP.ListMin = ListMin;
this.Output.ListTags.Add(AccessedImage.GetBitmap(0.2f, IP, ListLUTs));
}
}
base.End();
return FeedBackMessage;
//// here is the core of the meta component ...
//// just a list of Component steps
//foreach (cWell item in Input)
//{
// item.AssociatedPlate.DBConnection = new cDBConnection(item.AssociatedPlate, item.SQLTableName);
// cListSingleBiologicalObjects ListPhenotypes = item.AssociatedPlate.DBConnection.GetBiologicalPhenotypes(item);
// cExtendedTable ET = item.AssociatedPlate.DBConnection.GetWellValues(item, cGlobalInfo.CurrentScreening.ListDescriptors.GetActiveDescriptors());
// item.AssociatedPlate.DBConnection.CloseConnection();
// ET.ListTags = new List<object>();
// for (int i = 0; i < ET.Count; i++)
// {
// ET[i].ListTags = new List<object>();
// for (int j = 0; j < ListPhenotypes.Count; j++)
// ET[i].ListTags.Add(ListPhenotypes[j]);
// }
// for (int j = 0; j < ListPhenotypes.Count; j++)
// ET.ListTags.Add(ListPhenotypes[j]);
// if (Output == null)
// Output = new cExtendedTable(ET);
// else
// {
// cMerge M = new cMerge();
// M.IsHorizontal = false;
// M.SetInputData(Output, ET);
// M.Run();
// Output = M.GetOutPut();
// }
//}
}
/// <summary>
/// Display the information window related to the selected well
/// </summary>
private void ToolStripMenuItem_Image(object sender, EventArgs e)
{
int Field = (int)cGlobalInfo.OptionsWindow.numericUpDownDefaultField.Value;
cDisplaySingleImage IV = new cDisplaySingleImage();
cGetImageFromWells IFW = new cGetImageFromWells();
IFW.SetInputData(new cListWells(this));
IFW.ListProperties.FindByName("Field").SetNewValue((int)0);
if(cGlobalInfo.OptionsWindow.numericUpDownImageAccessNumberOfFields.Value>1)
IFW.ListProperties.FindByName("Field").IsGUIforValue = true;
if (IFW.Run().IsSucceed == false)
{
return;
}
IV.SetInputData(IFW.GetOutPut());
IV.Title = this.GetShortInfo() + " - Field: " + ((int)(IFW.ListProperties.FindByName("Field").GetValue()));
IV.IsDisplayScale = true;
IV.IsUseSavedDefaultDisplayProperties = true;
IV.Run();
}