public static void GenerateDefaultTaskTomls(string folderLocation)
{
try
{
if (!Directory.Exists(folderLocation))
{
Directory.CreateDirectory(folderLocation);
}
CalibrationTask c = new CalibrationTask();
Toml.WriteFile(c, Path.Combine(folderLocation, @"CalibrationTask.toml"), MetaMorpheusTask.tomlConfig);
GptmdTask g = new GptmdTask();
Toml.WriteFile(g, Path.Combine(folderLocation, @"GptmdTask.toml"), MetaMorpheusTask.tomlConfig);
SearchTask s = new SearchTask();
Toml.WriteFile(s, Path.Combine(folderLocation, @"SearchTask.toml"), MetaMorpheusTask.tomlConfig);
XLSearchTask xl = new XLSearchTask();
Toml.WriteFile(xl, Path.Combine(folderLocation, @"XLSearchTask.toml"), MetaMorpheusTask.tomlConfig);
GlycoSearchTask glyco = new GlycoSearchTask();
Toml.WriteFile(glyco, Path.Combine(folderLocation, @"GlycoSearchTask.toml"), MetaMorpheusTask.tomlConfig);
}
catch (Exception e)
{
throw new MetaMorpheusException("Default tomls could not be written: " + e.Message);
}
}
public GptmdTaskWindow(GptmdTask myGPTMDtask)
{
InitializeComponent();
PopulateChoices();
TheTask = myGPTMDtask;
UpdateFieldsFromTask(TheTask);
}
public GptmdTaskWindow()
{
InitializeComponent();
PopulateChoices();
TheTask = new GptmdTask();
UpdateFieldsFromTask(TheTask);
this.saveButton.Content = "Add the GPTMD Task";
}
public static void TestPrunedGeneration()
{
//Create GPTMD Task
//Create Search Task
GptmdTask task1 = new GptmdTask
{
CommonParameters = new CommonParameters(),
};
SearchTask task2 = new SearchTask
{
CommonParameters = new CommonParameters(),
SearchParameters = new SearchParameters
{
DoParsimony = true,
SearchTarget = true,
WritePrunedDatabase = true,
SearchType = SearchType.Classic
}
};
List <(string, MetaMorpheusTask)> taskList = new List <(string, MetaMorpheusTask)> {
("task1", task1), ("task2", task2)
};
string mzmlName = @"TestData\PrunedDbSpectra.mzml";
string fastaName = @"TestData\DbForPrunedDb.fasta";
var engine = new EverythingRunnerEngine(taskList, new List <string> {
mzmlName
}, new List <DbForTask> {
new DbForTask(fastaName, false)
}, Environment.CurrentDirectory);
engine.Run();
string final = Path.Combine(MySetUpClass.outputFolder, "task2", "DbForPrunedDbGPTMDproteinPruned.xml");
List <Protein> proteins = ProteinDbLoader.LoadProteinXML(final, true, DecoyType.Reverse, new List <Modification>(), false, new List <string>(), out var ok);
//ensures that protein out put contins the correct number of proteins to match the folowing conditions.
// all proteins in DB have baseSequence!=null (not ambiguous)
// all proteins that belong to a protein group are written to DB
Assert.AreEqual(proteins.Count(), 20);
int totalNumberOfMods = 0;
foreach (Protein p in proteins)
{
int numberOfMods = p.OneBasedPossibleLocalizedModifications.Count();
totalNumberOfMods = totalNumberOfMods + numberOfMods;
}
//tests that modifications are being done correctly
Assert.AreEqual(totalNumberOfMods, 0);
}
public GptmdTaskWindow(GptmdTask myGPTMDtask)
{
InitializeComponent();
PopulateChoices();
TheTask = myGPTMDtask ?? new GptmdTask();
UpdateFieldsFromTask(TheTask);
if (myGPTMDtask == null)
{
this.saveButton.Content = "Add the GPTMD Task";
}
SearchModifications.Timer.Tick += new EventHandler(TextChangeTimerHandler);
base.Closing += this.OnClosing;
}
private void UpdateFieldsFromTask(GptmdTask task)
{
useProvidedPrecursor.IsChecked = task.CommonParameters.UseProvidedPrecursorInfo;
deconvolutePrecursors.IsChecked = task.CommonParameters.DoPrecursorDeconvolution;
DeconvolutionMaxAssumedChargeStateTextBox.Text = task.CommonParameters.DeconvolutionMaxAssumedChargeState.ToString();
missedCleavagesTextBox.Text = task.CommonParameters.DigestionParams.MaxMissedCleavages == int.MaxValue ? "" : task.CommonParameters.DigestionParams.MaxMissedCleavages.ToString(CultureInfo.InvariantCulture);
MinPeptideLengthTextBox.Text = task.CommonParameters.DigestionParams.MinPeptideLength.ToString(CultureInfo.InvariantCulture);
MaxPeptideLengthTextBox.Text = task.CommonParameters.DigestionParams.MaxPeptideLength == int.MaxValue ? "" : task.CommonParameters.DigestionParams.MaxPeptideLength.ToString(CultureInfo.InvariantCulture);
proteaseComboBox.SelectedItem = task.CommonParameters.DigestionParams.Protease;
maxModificationIsoformsTextBox.Text = task.CommonParameters.DigestionParams.MaxModificationIsoforms.ToString(CultureInfo.InvariantCulture);
initiatorMethionineBehaviorComboBox.SelectedIndex = (int)task.CommonParameters.DigestionParams.InitiatorMethionineBehavior;
productMassToleranceTextBox.Text = task.CommonParameters.ProductMassTolerance.Value.ToString(CultureInfo.InvariantCulture);
productMassToleranceComboBox.SelectedIndex = task.CommonParameters.ProductMassTolerance is AbsoluteTolerance ? 0 : 1;
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;
minScoreAllowed.Text = task.CommonParameters.ScoreCutoff.ToString(CultureInfo.InvariantCulture);
maxThreadsTextBox.Text = task.CommonParameters.MaxThreadsToUsePerFile.ToString(CultureInfo.InvariantCulture);
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));
}
}
foreach (var heh in localizeModTypeForTreeViewObservableCollection)
{
heh.Use = false;
}
foreach (var mod in task.GptmdParameters.ListOfModsGptmd)
{
var theModType = gptmdModTypeForTreeViewObservableCollection.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);
gptmdModTypeForTreeViewObservableCollection.Add(theModType);
theModType.Children.Add(new ModForTreeView("UNKNOWN MODIFICATION!", true, mod.Item2, true, theModType));
}
}
foreach (var ye in variableModTypeForTreeViewObservableCollection)
{
ye.VerifyCheckState();
}
foreach (var ye in fixedModTypeForTreeViewObservableCollection)
{
ye.VerifyCheckState();
}
foreach (var ye in gptmdModTypeForTreeViewObservableCollection)
{
ye.VerifyCheckState();
}
}
private void UpdateFieldsFromTask(GptmdTask task)
{
UseProvidedPrecursor.IsChecked = task.CommonParameters.UseProvidedPrecursorInfo;
DeconvolutePrecursors.IsChecked = task.CommonParameters.DoPrecursorDeconvolution;
DeconvolutionMaxAssumedChargeStateTextBox.Text = task.CommonParameters.DeconvolutionMaxAssumedChargeState.ToString();
MissedCleavagesTextBox.Text = task.CommonParameters.DigestionParams.MaxMissedCleavages == int.MaxValue ? "" : task.CommonParameters.DigestionParams.MaxMissedCleavages.ToString(CultureInfo.InvariantCulture);
MinPeptideLengthTextBox.Text = task.CommonParameters.DigestionParams.MinPeptideLength.ToString(CultureInfo.InvariantCulture);
MaxPeptideLengthTextBox.Text = task.CommonParameters.DigestionParams.MaxPeptideLength == int.MaxValue ? "" : task.CommonParameters.DigestionParams.MaxPeptideLength.ToString(CultureInfo.InvariantCulture);
ProteaseComboBox.SelectedItem = task.CommonParameters.DigestionParams.Protease;
MaxModificationIsoformsTextBox.Text = task.CommonParameters.DigestionParams.MaxModificationIsoforms.ToString(CultureInfo.InvariantCulture);
MaxModsPerPeptideTextBox.Text = task.CommonParameters.DigestionParams.MaxModsForPeptide.ToString(CultureInfo.InvariantCulture);
InitiatorMethionineBehaviorComboBox.SelectedIndex = (int)task.CommonParameters.DigestionParams.InitiatorMethionineBehavior;
DissociationTypeComboBox.SelectedItem = task.CommonParameters.DissociationType.ToString();
ProductMassToleranceTextBox.Text = task.CommonParameters.ProductMassTolerance.Value.ToString(CultureInfo.InvariantCulture);
ProductMassToleranceComboBox.SelectedIndex = task.CommonParameters.ProductMassTolerance is AbsoluteTolerance ? 0 : 1;
PrecursorMassToleranceTextBox.Text = task.CommonParameters.PrecursorMassTolerance.Value.ToString(CultureInfo.InvariantCulture);
PrecursorMassToleranceComboBox.SelectedIndex = task.CommonParameters.PrecursorMassTolerance is AbsoluteTolerance ? 0 : 1;
MinScoreAllowed.Text = task.CommonParameters.ScoreCutoff.ToString(CultureInfo.InvariantCulture);
MaxThreadsTextBox.Text = task.CommonParameters.MaxThreadsToUsePerFile.ToString(CultureInfo.InvariantCulture);
AddCompIonCheckBox.IsChecked = task.CommonParameters.AddCompIons;
MinVariantDepthTextBox.Text = task.CommonParameters.MinVariantDepth.ToString(CultureInfo.InvariantCulture);
MaxHeterozygousVariantsTextBox.Text = task.CommonParameters.MaxHeterozygousVariants.ToString(CultureInfo.InvariantCulture);
CustomFragmentationWindow = new CustomFragmentationWindow(task.CommonParameters.CustomIons);
OutputFileNameTextBox.Text = task.CommonParameters.TaskDescriptor;
TrimMs1.IsChecked = task.CommonParameters.TrimMs1Peaks;
TrimMsMs.IsChecked = task.CommonParameters.TrimMsMsPeaks;
NumberOfPeaksToKeepPerWindowTextBox.Text = task.CommonParameters.NumberOfPeaksToKeepPerWindow == int.MaxValue || !task.CommonParameters.NumberOfPeaksToKeepPerWindow.HasValue ? "" : task.CommonParameters.NumberOfPeaksToKeepPerWindow.Value.ToString(CultureInfo.InvariantCulture);
MinimumAllowedIntensityRatioToBasePeakTexBox.Text = task.CommonParameters.MinimumAllowedIntensityRatioToBasePeak == double.MaxValue || !task.CommonParameters.MinimumAllowedIntensityRatioToBasePeak.HasValue ? "" : task.CommonParameters.MinimumAllowedIntensityRatioToBasePeak.Value.ToString(CultureInfo.InvariantCulture);
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.ModName.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)
{
ModTypeForTreeView theModType = variableModTypeForTreeViewObservableCollection.FirstOrDefault(b => b.DisplayName.Equals(mod.Item1));
if (theModType != null)
{
var theMod = theModType.Children.FirstOrDefault(b => b.ModName.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));
}
}
foreach (var heh in localizeModTypeForTreeViewObservableCollection)
{
heh.Use = false;
}
foreach (var mod in task.GptmdParameters.ListOfModsGptmd)
{
ModTypeForTreeView theModType = gptmdModTypeForTreeViewObservableCollection.FirstOrDefault(b => b.DisplayName.Equals(mod.Item1));
if (theModType != null)
{
var theMod = theModType.Children.FirstOrDefault(b => b.ModName.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);
gptmdModTypeForTreeViewObservableCollection.Add(theModType);
theModType.Children.Add(new ModForTreeView("UNKNOWN MODIFICATION!", true, mod.Item2, true, theModType));
}
}
foreach (var ye in variableModTypeForTreeViewObservableCollection)
{
ye.VerifyCheckState();
}
foreach (var ye in fixedModTypeForTreeViewObservableCollection)
{
ye.VerifyCheckState();
}
foreach (var ye in gptmdModTypeForTreeViewObservableCollection)
{
ye.VerifyCheckState();
}
}
public static void TestEverythingRunner()
{
foreach (var modFile in Directory.GetFiles(@"Mods"))
{
GlobalVariables.AddMods(PtmListLoader.ReadModsFromFile(modFile));
}
CalibrationTask task1 = new CalibrationTask
{
CommonParameters = new CommonParameters(digestionParams: new DigestionParams(maxMissedCleavages: 0, minPeptideLength: 1, initiatorMethionineBehavior: InitiatorMethionineBehavior.Retain)),
CalibrationParameters = new CalibrationParameters
{
WriteIntermediateFiles = true,
NumFragmentsNeededForEveryIdentification = 6,
}
};
GptmdTask task2 = new GptmdTask
{
CommonParameters = new CommonParameters()
};
SearchTask task3 = new SearchTask
{
CommonParameters = new CommonParameters(),
SearchParameters = new SearchParameters
{
DoParsimony = true,
SearchTarget = true,
SearchType = SearchType.Modern
}
};
SearchTask task4 = new SearchTask
{
CommonParameters = new CommonParameters(),
SearchParameters = new SearchParameters
{
SearchType = SearchType.Modern,
}
};
List <(string, MetaMorpheusTask)> taskList = new List <(string, MetaMorpheusTask)> {
("task1", task1),
("task2", task2),
("task3", task3),
("task4", task4),
};
List <ModificationWithMass> variableModifications = GlobalVariables.AllModsKnown.OfType <ModificationWithMass>().Where(b => task1.CommonParameters.ListOfModsVariable.Contains((b.modificationType, b.id))).ToList();
List <ModificationWithMass> fixedModifications = GlobalVariables.AllModsKnown.OfType <ModificationWithMass>().Where(b => task1.CommonParameters.ListOfModsFixed.Contains((b.modificationType, b.id))).ToList();
// Generate data for files
Protein ParentProtein = new Protein("MPEPTIDEKANTHE", "accession1");
var digestedList = ParentProtein.Digest(task1.CommonParameters.DigestionParams, fixedModifications, variableModifications).ToList();
Assert.AreEqual(3, digestedList.Count);
PeptideWithSetModifications pepWithSetMods1 = digestedList[0];
PeptideWithSetModifications pepWithSetMods2 = digestedList[2];
var dictHere = new Dictionary <int, List <Modification> >();
ModificationMotif.TryGetMotif("E", out ModificationMotif motif);
dictHere.Add(3, new List <Modification> {
new ModificationWithMass("21", null, motif, TerminusLocalization.Any, 21.981943)
});
Protein ParentProteinToNotInclude = new Protein("MPEPTIDEK", "accession2", "organism", new List <Tuple <string, string> >(), dictHere);
digestedList = ParentProteinToNotInclude.Digest(task1.CommonParameters.DigestionParams, fixedModifications, variableModifications).ToList();
MsDataFile myMsDataFile = new TestDataFile(new List <PeptideWithSetModifications> {
pepWithSetMods1, pepWithSetMods2, digestedList[1]
});
Protein proteinWithChain = new Protein("MAACNNNCAA", "accession3", "organism", new List <Tuple <string, string> >(), new Dictionary <int, List <Modification> >(), new List <ProteolysisProduct> {
new ProteolysisProduct(4, 8, "chain")
}, "name2", "fullname2");
string mzmlName = @"ok.mzML";
IO.MzML.MzmlMethods.CreateAndWriteMyMzmlWithCalibratedSpectra(myMsDataFile, mzmlName, false);
string xmlName = "okk.xml";
ProteinDbWriter.WriteXmlDatabase(new Dictionary <string, HashSet <Tuple <int, Modification> > >(), new List <Protein> {
ParentProtein, proteinWithChain
}, xmlName);
// RUN!
var engine = new EverythingRunnerEngine(taskList, new List <string> {
mzmlName
}, new List <DbForTask> {
new DbForTask(xmlName, false)
}, Environment.CurrentDirectory);
engine.Run();
}
private void UpdateFieldsFromTask(GptmdTask task)
{
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);
initiatorMethionineBehaviorComboBox.SelectedIndex = (int)task.CommonParameters.DigestionParams.InitiatorMethionineBehavior;
productMassToleranceTextBox.Text = task.CommonParameters.ProductMassTolerance.Value.ToString(CultureInfo.InvariantCulture);
productMassToleranceComboBox.SelectedIndex = task.CommonParameters.ProductMassTolerance is AbsoluteTolerance ? 0 : 1;
precursorMassToleranceTextBox.Text = task.CommonParameters.PrecursorMassTolerance.Value.ToString(CultureInfo.InvariantCulture);
precursorMassToleranceComboBox.SelectedIndex = task.CommonParameters.PrecursorMassTolerance is AbsoluteTolerance ? 0 : 1;
//maxDegreesOfParallelism.Text = task.CommonParameters.MaxParallelFilesToAnalyze.ToString();
bCheckBox.IsChecked = task.CommonParameters.BIons;
yCheckBox.IsChecked = task.CommonParameters.YIons;
cCheckBox.IsChecked = task.CommonParameters.CIons;
zdotCheckBox.IsChecked = task.CommonParameters.ZdotIons;
//conserveMemoryCheckBox.IsChecked = task.CommonParameters.ConserveMemory;
minScoreAllowed.Text = task.CommonParameters.ScoreCutoff.ToString(CultureInfo.InvariantCulture);
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 = false;
}
}
//else
//{
// foreach (var heh in localizeModTypeForTreeViewObservableCollection)
// {
// if (task.CommonParameters.ListOfModTypesLocalize.Contains(heh.DisplayName))
// heh.Use = true;
// else
// heh.Use = false;
// }
//}
foreach (var mod in task.GptmdParameters.ListOfModsGptmd)
{
var theModType = gptmdModTypeForTreeViewObservableCollection.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);
gptmdModTypeForTreeViewObservableCollection.Add(theModType);
theModType.Children.Add(new ModForTreeView("UNKNOWN MODIFICATION!", true, mod.Item2, true, theModType));
}
}
foreach (var ye in variableModTypeForTreeViewObservableCollection)
{
ye.VerifyCheckState();
}
foreach (var ye in fixedModTypeForTreeViewObservableCollection)
{
ye.VerifyCheckState();
}
foreach (var ye in gptmdModTypeForTreeViewObservableCollection)
{
ye.VerifyCheckState();
}
}