private void cmiLoadPeptideMatrix_Click(object sender, EventArgs e)
{
try
{
DialogResult dlg = dlgOpenPeptideMatrix.ShowDialog();
if (dlg != DialogResult.OK)
{
return;
}
string filename = dlgOpenPeptideMatrix.FileName;
string[,] peptides = FileUtil.ReadPeptideMatrix(filename);
rowCount = peptides.GetLength(0);
colCount = peptides.GetLength(1);
SetRowColumnCount();
UpdateArrayInfo();
if (peptides != null)
{
PA = new PeptideArray(rowCount, colCount, rowsFirst);
PA.SetPeptideMatrix(peptides);
peptidelength = PA.PeptideLength;
ePeptideLength.Text = peptidelength.ToString();
LoadPeptidesFromPeptideArrayToGrid();
peptidesLoaded = true;
quantificationLoaded = false;
FillPAValues();
Renormalize();
}
}
catch
{
MessageBox.Show("There is a problem with loading the peptide matrix file.\r\nPlease make sure the peptide matrix is the only data in the loaded file.\r\n", Application.ProductName);
}
}
private void cmiPastePeptide_Click(object sender, EventArgs e)
{
try
{
string[,] matrix = MatrixUtil.ClipboardToMatrix();
matrix = MatrixUtil.StripHeaderRowColumns(matrix, false);
rowCount = matrix.GetLength(0);
colCount = matrix.GetLength(1);
PA = new PeptideArray(rowCount, colCount, rowsFirst);
PA.SetPeptideMatrix(matrix);
peptidelength = PA.PeptideLength;
ePeptideLength.Text = peptidelength.ToString();
dgQuantification.RowCount = dgQuantification.ColumnCount = 0;
dgNormalized.RowCount = dgNormalized.ColumnCount = 0;
SetRowColumnCount();
GridUtil.LoadStringMatrixToGrid(dgPeptides, matrix);
peptidesLoaded = true;
quantificationLoaded = false;
FillPAValues();
ClearMotifs();
}
catch
{
}
}
private void btnSave_Click(object sender, EventArgs e)
{
if (PA == null)
{
return;
}
dlgSaveProject.FileName = ProjectName;
DialogResult dlg = dlgSaveProject.ShowDialog();
if (dlg != DialogResult.OK)
{
return;
}
SetText(dlgSaveProject);
PA.Notes = eNotes.Text;
PA.ImageStr = FileUtil.ImageToBase64(imageReference.Image);
string filename = dlgSaveProject.FileName;
if (PeptideArray.SaveToFile(filename, PA))
{
MessageBox.Show(filename + " is saved", Analyzer.ProgramName);
}
}
private void btnLoad_Click(object sender, EventArgs e)
{
try
{
DialogResult dlg = dlgOpenProject.ShowDialog();
if (dlg != DialogResult.OK)
{
return;
}
SetText(dlgOpenProject);
string filename = dlgOpenProject.FileName;
try
{
PA = PeptideArray.ReadFromFile(filename);
}
catch
{
MessageBox.Show("The file may be corrupted or not a valid PeSA project file.", Analyzer.ProgramName);
}
peptidelength = PA.PeptideLength;
ePeptideLength.Text = peptidelength.ToString();
rowsFirst = PA.RowsFirst;
colCount = PA.ColCount;
rowCount = PA.RowCount;
UpdateArrayInfo();
eNormalizeBy.Text = PA.NormalizationValue.ToString();
thresholdEntry.SetInitialValues(PA.GetPositiveThreshold(), PA.GetNegativeThreshold());
eFreqThreshold.Text = PA.FrequencyThreshold.ToString();
eAminoAcid.Text = PA.KeyAA.ToString();
eKeyPosition.Text = PA.KeyPosition?.ToString() ?? "";
SetRowColumnCount();
if (PA.PeptideMatrix != null)
{
LoadPeptidesFromPeptideArrayToGrid();
}
if (PA.QuantificationMatrix != null)
{
LoadQuantificationFromPeptideArrayToGrid();
}
if (PA.NormalizedMatrix != null)
{
LoadNormalizedMatrixFromPeptideArrayToGrid();
}
bool gridsOK = ColorGrids();
eNotes.Text = PA.Notes;
imageReference.Image = null;
try
{
Image img = FileUtil.Base64ToImage(PA.ImageStr);
imageReference.Image = img;
}
catch { }
if (!gridsOK)
{
MessageBox.Show("There is a problem in loading the file. It is highly recommended to re-run the analysis.", Analyzer.ProgramName);
}
}
catch
{
MessageBox.Show("There is a problem in loading the file. It is highly recommended to re-run the analysis.", Analyzer.ProgramName);
}
linkRun.Visible = true;
}