public NeoSearchTaskWindow(NeoSearchTask task)
{
InitializeComponent();
TheTask = task;
UpdateFieldsFromTask(TheTask);
dataContextForSearchTaskWindow = new DataContextForSearchTaskWindow
{
ExpanderTitle = string.Join(", ", SearchModesForThisTask.Where(b => b.Use).Select(b => b.Name))
};
this.DataContext = dataContextForSearchTaskWindow;
this.saveButton.Content = "Add the Search Tasks";
}
private void UpdateFieldsFromTask(NeoSearchTask task)
{
calibrate.IsChecked = task.NeoParameters.Calibrate;
gptmd.IsChecked = task.NeoParameters.GPTMD;
searchTarget.IsChecked = task.NeoParameters.TargetSearch;
targetPath.Text = task.NeoParameters.TargetFilePath != null ? task.NeoParameters.TargetFilePath : "";
searchDecoy.IsChecked = task.NeoParameters.DecoySearch;
decoyPath.Text = task.NeoParameters.TargetFilePath != null ? task.NeoParameters.DecoyFilePath : "";
searchN.IsChecked = task.NeoParameters.SearchNTerminus;
NPath.Text = task.NeoParameters.NFilePath != null ? task.NeoParameters.NFilePath : "";
searchC.IsChecked = task.NeoParameters.SearchCTerminus;
CPath.Text = task.NeoParameters.CFilePath != null ? task.NeoParameters.CFilePath : "";
maxMissedConsecutiveTextBox.Text = task.NeoParameters.MaxMissedConsecutiveCleavages.ToString();
maxMissedTextBox.Text = task.NeoParameters.MaxMissedCleavages.ToString();
maxCandidatesPerSpectrumTextBox.Text = task.NeoParameters.MaxCandidatesPerSpectrum.ToString();
minCisLengthTextBox.Text = task.NeoParameters.MinDistanceAllowed.ToString();
maxCisLengthTextBox.Text = task.NeoParameters.MaxDistanceAllowed.ToString();
searchNormalCis.IsChecked = task.NeoParameters.NormalCis;
searchReverseCis.IsChecked = task.NeoParameters.ReverseCis;
proteaseComboBox.SelectedItem = task.CommonParameters.DigestionParams.Protease;
missedCleavagesTextBox.Text = task.CommonParameters.DigestionParams.MaxMissedCleavages.ToString(CultureInfo.InvariantCulture);
txtMinPeptideLength.Text = task.CommonParameters.DigestionParams.MinPeptideLength.HasValue ? task.CommonParameters.DigestionParams.MinPeptideLength.Value.ToString(CultureInfo.InvariantCulture) : "";
txtMaxPeptideLength.Text = task.CommonParameters.DigestionParams.MaxPeptideLength.HasValue ? task.CommonParameters.DigestionParams.MaxPeptideLength.Value.ToString(CultureInfo.InvariantCulture) : "";
proteaseComboBox.SelectedItem = task.CommonParameters.DigestionParams.Protease;
maxModificationIsoformsTextBox.Text = task.CommonParameters.DigestionParams.MaxModificationIsoforms.ToString(CultureInfo.InvariantCulture);
txtMaxModNum.Text = task.CommonParameters.DigestionParams.MaxModsForPeptide.ToString(CultureInfo.InvariantCulture);
initiatorMethionineBehaviorComboBox.SelectedIndex = (int)task.CommonParameters.DigestionParams.InitiatorMethionineBehavior;
if (task.CommonParameters.ProductMassTolerance != null)
{
productMassToleranceTextBox.Text = task.CommonParameters.ProductMassTolerance.Value.ToString(CultureInfo.InvariantCulture);
}
productMassToleranceComboBox.SelectedIndex = task.CommonParameters.ProductMassTolerance is AbsoluteTolerance ? 0 : 1;
if (task.CommonParameters.PrecursorMassTolerance != null)
{
precursorMassToleranceTextBox.Text = task.CommonParameters.PrecursorMassTolerance.Value.ToString(CultureInfo.InvariantCulture);
}
precursorMassToleranceComboBox.SelectedIndex = task.CommonParameters.PrecursorMassTolerance is AbsoluteTolerance ? 0 : 1;
bCheckBox.IsChecked = task.CommonParameters.BIons;
yCheckBox.IsChecked = task.CommonParameters.YIons;
cCheckBox.IsChecked = task.CommonParameters.CIons;
zdotCheckBox.IsChecked = task.CommonParameters.ZdotIons;
OutputFileNameTextBox.Text = task.CommonParameters.TaskDescriptor;
foreach (var mod in task.CommonParameters.ListOfModsFixed)
{
var theModType = fixedModTypeForTreeViewObservableCollection.FirstOrDefault(b => b.DisplayName.Equals(mod.Item1));
if (theModType != null)
{
var theMod = theModType.Children.FirstOrDefault(b => b.DisplayName.Equals(mod.Item2));
if (theMod != null)
{
theMod.Use = true;
}
else
{
theModType.Children.Add(new ModForTreeView("UNKNOWN MODIFICATION!", true, mod.Item2, true, theModType));
}
}
else
{
theModType = new ModTypeForTreeView(mod.Item1, true);
fixedModTypeForTreeViewObservableCollection.Add(theModType);
theModType.Children.Add(new ModForTreeView("UNKNOWN MODIFICATION!", true, mod.Item2, true, theModType));
}
}
foreach (var mod in task.CommonParameters.ListOfModsVariable)
{
var theModType = variableModTypeForTreeViewObservableCollection.FirstOrDefault(b => b.DisplayName.Equals(mod.Item1));
if (theModType != null)
{
var theMod = theModType.Children.FirstOrDefault(b => b.DisplayName.Equals(mod.Item2));
if (theMod != null)
{
theMod.Use = true;
}
else
{
theModType.Children.Add(new ModForTreeView("UNKNOWN MODIFICATION!", true, mod.Item2, true, theModType));
}
}
else
{
theModType = new ModTypeForTreeView(mod.Item1, true);
variableModTypeForTreeViewObservableCollection.Add(theModType);
theModType.Children.Add(new ModForTreeView("UNKNOWN MODIFICATION!", true, mod.Item2, true, theModType));
}
}
localizeAllCheckBox.IsChecked = task.CommonParameters.LocalizeAll;
if (task.CommonParameters.LocalizeAll)
{
foreach (var heh in localizeModTypeForTreeViewObservableCollection)
{
heh.Use = true;
}
}
else
{
foreach (var mod in task.CommonParameters.ListOfModTypesLocalize)
{
var theModType = localizeModTypeForTreeViewObservableCollection.FirstOrDefault(b => b.DisplayName.Equals(mod));
theModType.Use = true;
}
}
foreach (var ye in variableModTypeForTreeViewObservableCollection)
{
ye.VerifyCheckState();
}
foreach (var ye in fixedModTypeForTreeViewObservableCollection)
{
ye.VerifyCheckState();
}
foreach (var ye in localizeModTypeForTreeViewObservableCollection)
{
ye.VerifyCheckState();
}
}
