private void ExportToPdf(MetaDrawPsm psm, string path)
{
System.Reflection.PropertyInfo[] temp = psm.GetType().GetProperties();
for (int i = 4; i < temp.Length; i++)
{
propertyView.Rows.Add(temp[i].Name, temp[i].GetValue(psm, null));
}
dataGridProperties.Items.Refresh();
DrawPsm(psm.ScanNum, psm.FullSequence);
double wid = 0;
dataGridProperties.HorizontalScrollBarVisibility = ScrollBarVisibility.Disabled;
dataGridProperties.VerticalScrollBarVisibility = ScrollBarVisibility.Disabled;
foreach (DataGridColumn col in dataGridProperties.Columns)
{
wid += col.ActualWidth;
}
PDFOutPut.Background = Brushes.White;
PDFOutPut.ColumnDefinitions[0].Width = new GridLength(wid + 10);
PDFOutPut.Measure(new Size(wid + gbPSM.ActualWidth + 10, 600));
PDFOutPut.Arrange(new Rect(new Size(wid + gbPSM.ActualWidth + 10, 600)));
dataGridProperties.Measure(new Size(wid + 22, 600));
dataGridProperties.Arrange(new Rect(new Size(wid + 5, 600)));
dataGridProperties.Arrange(new Rect(new Size(wid + 5, 600)));
var rtb = new RenderTargetBitmap((int)(wid + gbPSM.ActualWidth) + 11, 600, 96, 96, PixelFormats.Pbgra32);
rtb.Render(PDFOutPut);
BitmapFrame bf = BitmapFrame.Create(rtb);
var encoder = new BmpBitmapEncoder();
encoder.Frames.Add(bf);
using (var stream = new MemoryStream())
{
encoder.Save(stream);
var img = System.Drawing.Bitmap.FromStream(stream);
PdfWriter.WriteToPdf(img, (int)(wid + gbPSM.ActualWidth) + 11, 600, path);
}
dataGridProperties.HorizontalScrollBarVisibility = ScrollBarVisibility.Visible;
dataGridProperties.VerticalScrollBarVisibility = ScrollBarVisibility.Visible;
PDFOutPut.ColumnDefinitions[0].Width = new GridLength(1, GridUnitType.Star);
}
private void TextBox_TextChanged(object sender, TextChangedEventArgs e)
{
string txt = (sender as TextBox).Text;
if (txt == "")
{
peptideSpectralMatchesView.Filter = null;
}
else
{
peptideSpectralMatchesView.Filter = obj =>
{
MetaDrawPsm psm = obj as MetaDrawPsm;
return((psm.ScanNum.ToString()).StartsWith(txt) || psm.FullSequence.ToUpper().Contains(txt.ToUpper()));
};
}
}
private void DrawPsm(int oneBasedScanNumber, string fullSequence = null)
{
MsDataScan msDataScanToDraw = MsDataFile.GetOneBasedScan(oneBasedScanNumber);
IEnumerable <MetaDrawPsm> scanPsms = peptideSpectralMatches.Where(p => p.ScanNum == oneBasedScanNumber);
if (fullSequence != null)
{
scanPsms = scanPsms.Where(p => p.FullSequence == fullSequence);
}
MetaDrawPsm psmToDraw = scanPsms.FirstOrDefault();
// draw annotated spectrum
mainViewModel.DrawPeptideSpectralMatch(msDataScanToDraw, psmToDraw);
// draw annotated base sequence
DrawAnnotatedBaseSequence(psmToDraw);
}
/// <summary>
/// Event triggers when a different cell is selected in the PSM data grid
/// </summary>
private void dataGridScanNums_SelectedCellsChanged(object sender, SelectedCellsChangedEventArgs e)
{
if (dataGridScanNums.SelectedItem == null)
{
return;
}
// draw the selected PSM
propertyView.Clear();
MetaDrawPsm row = (MetaDrawPsm)dataGridScanNums.SelectedItem;
System.Reflection.PropertyInfo[] temp = row.GetType().GetProperties();
for (int i = 4; i < temp.Length; i++)
{
propertyView.Rows.Add(temp[i].Name, temp[i].GetValue(row, null));
}
dataGridProperties.Items.Refresh();
DrawPsm(row.ScanNum, row.FullSequence);
}
private void PDFButton_Click(object sender, RoutedEventArgs e)
{
if (dataGridScanNums.SelectedCells.Count == 0)
{
MessageBox.Show("Please select at least one scan to export");
}
int num = dataGridScanNums.SelectedItems.Count;
string writeDirectory = Path.Combine(Directory.GetParent(tsvResultsFilePath).FullName, "PDF");
if (!Directory.Exists(writeDirectory))
{
Directory.CreateDirectory(writeDirectory);
}
foreach (object selectedItem in dataGridScanNums.SelectedItems)
{
MetaDrawPsm psm = (MetaDrawPsm)selectedItem;
ExportToPdf(psm, Path.Combine(writeDirectory, psm.ScanNum + "_" + psm.FullSequence + ".pdf"));
}
dataGridScanNums.SelectedItem = dataGridScanNums.SelectedItem;
MessageBox.Show(string.Format("{0} PDFs exported to " + writeDirectory, num));
}
private void DrawAnnotatedBaseSequence(MetaDrawPsm psm)
{
double spacing = 22;
BaseDraw.clearCanvas(canvas);
// draw base sequence
for (int r = 0; r < psm.BaseSequence.Length; r++)
{
BaseDraw.txtDrawing(canvas, new Point(r * spacing + 10, 10), psm.BaseSequence[r].ToString(), Brushes.Black);
}
// draw b ions
foreach (var bIon in psm.FragmentIons.Where(p => p.ProductType == ProductType.B))
{
int residue = bIon.IonNumber;
BaseDraw.botSplittingDrawing(canvas, new Point(residue * spacing + 8, 50), Colors.Blue, bIon.ProductType.ToString().ToLower() + bIon.IonNumber);
}
// draw c ions
foreach (var cIon in psm.FragmentIons.Where(p => p.ProductType == ProductType.C))
{
int residue = psm.BaseSequence.Length - cIon.IonNumber;
BaseDraw.botSplittingDrawing(canvas, new Point(residue * spacing + 8, 50), Colors.Gold, cIon.ProductType.ToString().ToLower() + cIon.IonNumber);
}
// draw y ions
foreach (var yIon in psm.FragmentIons.Where(p => p.ProductType == ProductType.Y))
{
int residue = psm.BaseSequence.Length - yIon.IonNumber;
BaseDraw.topSplittingDrawing(canvas, new Point(residue * spacing + 8, 0), Colors.Purple, yIon.ProductType.ToString().ToLower() + yIon.IonNumber);
}
// draw zdot ions
foreach (var zDotIon in psm.FragmentIons.Where(p => p.ProductType == ProductType.Zdot))
{
int residue = zDotIon.IonNumber;
BaseDraw.topSplittingDrawing(canvas, new Point(residue * spacing + 8, 0), Colors.Orange, zDotIon.ProductType.ToString().ToLower() + zDotIon.IonNumber);
}
// draw modifications
int aa = 0;
bool currentlyReadingMod = false;
for (int c = 0; c < psm.FullSequence.Length; c++)
{
switch (psm.FullSequence[c])
{
case '[':
currentlyReadingMod = true;
BaseDraw.circledTxtDraw(canvas, new Point(aa * spacing - 17, 12), Brushes.Yellow);
break;
case ']':
currentlyReadingMod = false;
break;
default:
if (!currentlyReadingMod)
{
aa++;
}
break;
}
}
}