private void linkLoadFromFile_LinkClicked(object sender, LinkLabelLinkClickedEventArgs e)
{
try
{
DialogResult dlg = dlgOpenQuantification.ShowDialog();
if (dlg != DialogResult.OK)
{
return;
}
SetText(dlgOpenProject);
string filename = dlgOpenQuantification.FileName;
if (System.IO.File.Exists(filename))
{
OA = FileUtil.ReadOPALArrayQuantificationData(filename);
thresholdEntry.SetInitialValues(OA.GetPositiveThreshold(), OA.GetNegativeThreshold());
cbPermutationXAxis.Checked = PermutationXAxis;
cbYAxisTopToBottom.Checked = OA.PositionYAxisTopToBottom;
if (OA.QuantificationMatrix != null)
{
LoadQuantificationFromOPALArrayToGrid();
}
GridUtil.LoadNumericMatrixToGrid(dgNormalized, OA.NormalizedMatrix, 1, 1);
FillGridHeaders(dgNormalized);
Run();
ColorGridsandDrawMotifs();
}
}
catch
{
MessageBox.Show("There is a problem with loading the quantification file.\r\nPlease make sure the quantification data is the only data in the loaded file.\r\n", Application.ProductName);
}
}
private void LoadProject()
{
try
{
DialogResult dlg = dlgOpenProject.ShowDialog();
if (dlg != DialogResult.OK)
{
return;
}
SetText(dlgOpenProject);
string filename = dlgOpenProject.FileName;
try
{
OA = OPALArray.ReadFromFile(filename);
}
catch
{
MessageBox.Show("The file may be corrupted or not a valid PeSA project file.", Analyzer.ProgramName);
}
thresholdEntry.SetInitialValues(OA.GetPositiveThreshold(), OA.GetNegativeThreshold());
rbMaxValue.Checked = OA.NormMode == NormalizationMode.Max;
rbPerRowColumn.Checked = OA.NormMode != NormalizationMode.Max;
cbPermutationXAxis.Checked = PermutationXAxis;
cbYAxisTopToBottom.Checked = OA.PositionYAxisTopToBottom;
if (OA.QuantificationMatrix != null)
{
LoadQuantificationFromOPALArrayToGrid();
}
GridUtil.LoadNumericMatrixToGrid(dgNormalized, OA.NormalizedMatrix, 1, 1);
FillGridHeaders(dgNormalized);
bool gridOK = ColorGridsandDrawMotifs();//also creates/draws the motif
eNotes.Text = OA.Notes;
imageReference.Image = null;
try
{
Image img = FileUtil.Base64ToImage(OA.ImageStr);
imageReference.Image = img;
}
catch { }
DrawColorMatrix();
if (!gridOK)
{
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;
}
private void Run()
{
string[,] values = new string[dgQuantification.RowCount, dgQuantification.ColumnCount];
for (int iRow = 0; iRow < dgQuantification.RowCount; iRow++)
{
for (int iCol = 0; iCol < dgQuantification.ColumnCount; iCol++)
{
values[iRow, iCol] = dgQuantification[iCol, iRow].Value?.ToString() ?? "";
}
}
string error = "";
bool xPossible = true, yPossible = true;
OPALArray.CheckPermutationAxis(values, ref xPossible, ref yPossible);
if (xPossible && yPossible)
{
PermutationXAxis = cbPermutationXAxis.Checked;
}
else if (xPossible)
{
PermutationXAxis = true;
cbPermutationXAxis.Checked = true;
}
else if (yPossible)
{
PermutationXAxis = false;
cbPermutationXAxis.Checked = false;
}
if (!xPossible && !yPossible)
{
MessageBox.Show("Please make sure one the axes have OPAL array (each amino acid has to exist at most once)", Analyzer.ProgramName);
return;
}
;
OA = new OPALArray(values, PermutationXAxis, cbYAxisTopToBottom.Checked, out error);
OA.SetPositiveThreshold(thresholdEntry.PositiveThreshold, out bool negChanged);
OA.SetNegativeThreshold(thresholdEntry.NegativeThreshold, out bool posChanged2);
if (error != "")
{
MessageBox.Show(error, Analyzer.ProgramName);
return;
}
GridUtil.LoadNumericMatrixToGrid(dgNormalized, OA.NormalizedMatrix, 1, 1);
FillGridHeaders(dgNormalized);
ColorGridsandDrawMotifs();
DrawColorMatrix();
}
private void btnSave_Click(object sender, EventArgs e)
{
dlgSaveProject.FileName = ProjectName;
DialogResult dlg = dlgSaveProject.ShowDialog();
if (dlg != DialogResult.OK)
{
return;
}
SetText(dlgSaveProject);
OA.Notes = eNotes.Text;
OA.ImageStr = FileUtil.ImageToBase64(imageReference.Image);
string filename = dlgSaveProject.FileName;
if (OPALArray.SaveToFile(filename, OA))
{
MessageBox.Show(filename + " is saved", Analyzer.ProgramName);
}
}
private void btnLoadQuantification_Click(object sender, EventArgs e)
{
try
{
DialogResult dlg = dlgOpenQuantification.ShowDialog();
if (dlg != DialogResult.OK)
{
return;
}
SetText(dlgOpenQuantification);
string filename = dlgOpenQuantification.FileName;
if (System.IO.File.Exists(filename))
{
OA = FileUtil.ReadOPALArrayQuantificationData(filename);
LoadQuantificationFromOPALArrayToGrid();
}
}
catch
{
MessageBox.Show("There is a problem with loading the quantification file.\r\nPlease make sure the quantification data is the only data in the loaded file.\r\n", Application.ProductName);
}
}
