private void Engine(object sender, EventArgs e)
{
this.Invoke(new MethodInvoker(delegate { StatustxtBox.Text = "Reading N and C files... (Task 0/6)"; }));
ImportData import = new ImportData(backgroundWorker1);
List <PSM> MMOutput = new List <PSM>();
List <TheoreticalProtein> database = new List <TheoreticalProtein>();
bool passedFileIO = true;
{
MMOutput = import.ImportPSMs(nFileName, cFileName, out string error_message);
if (error_message.Length > 0)
{
MessageBox.Show(error_message);
}
this.Invoke(new MethodInvoker(delegate { StatustxtBox.Text = "Reading database... (Task 1/6)"; }));
ClearProgress();
database = import.ImportDatabase(databaseFileName, out string error_message2);
if (error_message2.Length > 0)
{
MessageBox.Show(error_message2);
}
}
if (passedFileIO)
{
this.Invoke(new MethodInvoker(delegate { StatustxtBox.Text = "Splicing peptides... (Task 2/6)"; }));
ClearProgress();
SpliceFragments sf = new SpliceFragments(backgroundWorker1);
List <PSM> candidates = sf.ExperimentalTheoreticalMatching(MMOutput, out string error_message);
if (error_message.Length > 0)
{
MessageBox.Show(error_message);
}
ClearProgress();
AlternativeSequences altSeq = new AlternativeSequences(backgroundWorker1);
this.Invoke(new MethodInvoker(delegate { StatustxtBox.Text = "Finding ambiquity... (Task 3/6)"; }));
ClearProgress();
altSeq.FindAmbiguity(candidates, database, out string error_message2);
if (error_message2.Length > 0)
{
MessageBox.Show(error_message2);
}
FalsePositives.generateDecoys = false;
this.Invoke(new MethodInvoker(delegate { StatustxtBox.Text = "Recording variants... (Task 4/6)"; }));
ClearProgress();
FalsePositives rfp = new FalsePositives(backgroundWorker1);
rfp.FindCommonFalsePositives(candidates, database, out string error_message3);
if (error_message3.Length > 0)
{
MessageBox.Show(error_message3);
}
this.Invoke(new MethodInvoker(delegate { StatustxtBox.Text = "Exporting results... (Task 5/6)"; }));
ClearProgress();
ExportData ed = new ExportData(backgroundWorker1);
string e3 = ed.ExportAll(candidates, databaseFileName);
if (e3.Length > 0)
{
MessageBox.Show(e3);
}
this.Invoke(new MethodInvoker(delegate { StatustxtBox.Text = "Complete! (6/6)"; }));
MessageBox.Show("Complete!");
}
}
