public static void RecordBlastThresholds(UIParameters Up, UserControl4 uc4, string blastProgram, string blastDb, string blastAlgo)
{
Up.BlastProgram = blastProgram;
Up.BlastDatabase = blastDb;
Up.BlastAlgorithm = blastAlgo;
Up.BlastGeneticCode = (uc4.BlastDatabase.SelectedIndex + 1).ToString();
Up.BlastMinPercentQueryCoverage = uc4.QueryCoverageSlider.Value;
Up.BlastMinPercentIdentity = uc4.PercentIdSlider.Value;
Up.BlastMaxEvalue = Math.Pow(10, uc4.EvalueSlider.Value);
Up.BlastMaxNumHits = Convert.ToInt32(uc4.NumTopHitsSlider.Value);
}
public static void RecordBlastThresholds(UIParameters Up, UserControl4 uc4, string blastProgram, string blastDb, string blastAlgo)
{
Up.BlastProgram = blastProgram;
Up.BlastDatabase = blastDb;
Up.BlastAlgorithm = blastAlgo;
Up.BlastGeneticCode = (uc4.BlastDatabase.SelectedIndex + 1).ToString();
Up.BlastMinPercentQueryCoverage = uc4.QueryCoverageSlider.Value;
Up.BlastMinPercentIdentity = uc4.PercentIdSlider.Value;
Up.BlastMaxEvalue = Math.Pow(10, uc4.EvalueSlider.Value);
Up.BlastMaxNumHits = Convert.ToInt32(uc4.NumTopHitsSlider.Value);
}
/// <summary>
/// Run task for a particular step.
/// </summary>
/// <param name="task"></param>
/// <returns></returns>
private void RunTask(string task)
{
bool res = false;
switch (task)
{
case "UserControl0":
break;
case "UserControl1":
Util.SetupDirectories(Up.ProjectDir);
break;
case "UserControl2":
if ((!File.Exists(Up.ProjectDir + "\\genes.fasta")) ||
(File.Exists(Up.ProjectDir + "\\genes.fasta") && (Up.FastaFile != "")))
{
FastaParser parser = new FastaParser();
try
{
Up.QuerySequences = parser.Parse(Up.FastaFile).ToList();
}
catch
{
FatalErrorDialog("Error parsing FASTA file. Please confirm that the input file is in FASTA format. If the problem persists file a bug report at blip.codeplex.com. The application will now be closed.");
}
File.Copy(Up.FastaFile, Up.ProjectDir + "\\genes.fasta", true);
}
break;
case "UserControl3":
break;
case "UserControl4":
UserControl4 uc4 = (CurrentControl as UserControl4);
BlastUtil.RecordBlastThresholds(Up, uc4, ((ComboBoxItem)uc4.BlastProgram.SelectedItem).Content.ToString(), uc4.BlastDatabase.SelectedItem.ToString(), uc4.BlastAlgorithm.SelectedItem.ToString());
/*
MessageBox.Show(String.Format("Recorded Parameters:\n{0}\n{1}\n{2}\n{3}\n{4}\n{5}\n{6}\n{7}",
Up.BlastProgram,
Up.BlastDatabase,
Up.BlastGeneticCode,
Up.BlastAlgorithm,
Up.BlastMaxEvalue,
Up.BlastMaxNumHits,
Up.BlastMinPercentIdentity,
Up.BlastMinPercentQueryCoverage
));
*/
LaunchBlastPipeline(Up.ProjectDir + "\\genes.fasta");
break;
case "UserControl5":
LogMessage("Set Pivot parameters.\r\n");
break;
case "UserControl6":
UserControl6 uc6 = (CurrentControl as UserControl6);
//Pivot.RecordPivotParameters(Up, uc6.CollectionNameBox.Text, uc6.CollectionTitleBox.Text);
Pivot.RecordPivotParameters(Up, "blip", uc6.CollectionTitleBox.Text);
break;
case "UserControl7":
break;
case "UserControl8":
UserControl8 uc8 = (CurrentControl as UserControl8);
// progressBar1.Maximum = Up.QuerySequences.Count();
// progressBar1.Minimum = 0;
// progressBar1.Value = 0;
uc8.SaveImagePreviewState();
res = WriteCollection();
break;
case "UserControl9":
UserControl9 uc9 = (CurrentControl as UserControl9);
if (uc9.createProject.IsChecked == true)
{
Debug.WriteLine("NEW");
UserControls.Clear();
UserControl0 uc0 = new UserControl0(Up);
UserControls.Add(uc0);
UserControl9 c9 = new UserControl9(Up);
UserControls.Add(c9);
UserControl1 uc1 = new UserControl1(Up);
UserControls.Add(uc1);
UserControl2 uc2 = new UserControl2(Up);
UserControls.Add(uc2);
//UserControl3 uc3 = new UserControl3(Up);
//UserControls.Add(uc3);
UserControl6 c6 = new UserControl6(Up);
UserControls.Add(c6);
UserControl4 c4 = new UserControl4(Up);
UserControls.Add(c4);
UserControl5 uc5 = new UserControl5(Up);
UserControls.Add(uc5);
UserControl8 c8 = new UserControl8(Up);
UserControls.Add(c8);
UserControl7 uc7 = new UserControl7(Up);
UserControls.Add(uc7);
}
if (uc9.loadProject.IsChecked == true)
{
UserControls.Clear();
UserControl0 uc0 = new UserControl0(Up);
UserControls.Add(uc0);
UserControl9 c9 = new UserControl9(Up);
UserControls.Add(c9);
UserControl10 c10 = new UserControl10(Up);
UserControls.Add(c10);
UserControl11 c11 = new UserControl11(Up);
UserControls.Add(c11);
}
break;
case "UserControl10":
UserControl10 uc10 = (CurrentControl as UserControl10);
Debug.WriteLine("UC10");
Action<object> action = (object obj) =>
{
StartWebServer("/", Up.CxmlDir, Up.WebServerPort);
};
Task t1 = new Task(action, "BLiP_WS");
t1.Start();
Previous_Button.IsEnabled = false;
Next_Button.IsEnabled = false;
Finish_Button.IsEnabled = true;
break;
default:
break;
}
}