[WIP] Enable saving of multiple settings for tasks

MetaMorpheus.sln

@@ -0,0 +1,134 @@
+
+Microsoft Visual Studio Solution File, Format Version 12.00
+# Visual Studio Version 17
+VisualStudioVersion = 17.1.32228.430
+MinimumVisualStudioVersion = 10.0.40219.1
+Project("{9A19103F-16F7-4668-BE54-9A1E7A4F7556}") = "CMD", "CMD\CMD.csproj", "{FD20EBBA-F4C5-40D6-AD61-48A7EB255DAE}"
+EndProject
+Project("{9A19103F-16F7-4668-BE54-9A1E7A4F7556}") = "GUI", "GUI\GUI.csproj", "{C654FC97-FBD1-43D7-9F61-35FDD1A4E0AD}"
+EndProject
+Project("{9A19103F-16F7-4668-BE54-9A1E7A4F7556}") = "EngineLayer", "EngineLayer\EngineLayer.csproj", "{FFAE3A5E-B5AE-4CD0-ABF9-703C91F1C7D6}"
+EndProject
+Project("{9A19103F-16F7-4668-BE54-9A1E7A4F7556}") = "TaskLayer", "TaskLayer\TaskLayer.csproj", "{9CD3D75C-4E3C-40AC-A3D8-C32DD528DB7F}"
+EndProject
+Project("{930C7802-8A8C-48F9-8165-68863BCCD9DD}") = "MetaMorpheusSetup", "MetaMorpheusSetup\MetaMorpheusSetup.wixproj", "{BE72541A-66A4-4958-9D19-56ACC7D3876B}"
+	ProjectSection(ProjectDependencies) = postProject
+		{C654FC97-FBD1-43D7-9F61-35FDD1A4E0AD} = {C654FC97-FBD1-43D7-9F61-35FDD1A4E0AD}
+	EndProjectSection
+EndProject
+Project("{930C7802-8A8C-48F9-8165-68863BCCD9DD}") = "Bootstrapper1", "Bootstrapper1\Bootstrapper1.wixproj", "{FBA0315B-076D-4470-AFB0-64C8AB4A65A9}"
+EndProject
+Project("{9A19103F-16F7-4668-BE54-9A1E7A4F7556}") = "GuiFunctions", "GuiFunctions\GuiFunctions.csproj", "{653015B3-CC5A-4D1C-AAD3-1CE2A0C4D197}"
+EndProject
+Project("{9A19103F-16F7-4668-BE54-9A1E7A4F7556}") = "Test", "Test\Test.csproj", "{7EE028A9-75A2-450F-A9A7-76559ED15419}"
+EndProject
+Global
+	GlobalSection(SolutionConfigurationPlatforms) = preSolution
+		Debug|Any CPU = Debug|Any CPU
+		Debug|x64 = Debug|x64
+		Debug|x86 = Debug|x86
+		Release|Any CPU = Release|Any CPU
+		Release|x64 = Release|x64
+		Release|x86 = Release|x86
+	EndGlobalSection
+	GlobalSection(ProjectConfigurationPlatforms) = postSolution
+		{FD20EBBA-F4C5-40D6-AD61-48A7EB255DAE}.Debug|Any CPU.ActiveCfg = Debug|Any CPU
+		{FD20EBBA-F4C5-40D6-AD61-48A7EB255DAE}.Debug|Any CPU.Build.0 = Debug|Any CPU
+		{FD20EBBA-F4C5-40D6-AD61-48A7EB255DAE}.Debug|x64.ActiveCfg = Debug|Any CPU
+		{FD20EBBA-F4C5-40D6-AD61-48A7EB255DAE}.Debug|x64.Build.0 = Debug|Any CPU
+		{FD20EBBA-F4C5-40D6-AD61-48A7EB255DAE}.Debug|x86.ActiveCfg = Debug|Any CPU
+		{FD20EBBA-F4C5-40D6-AD61-48A7EB255DAE}.Debug|x86.Build.0 = Debug|Any CPU
+		{FD20EBBA-F4C5-40D6-AD61-48A7EB255DAE}.Release|Any CPU.ActiveCfg = Release|Any CPU
+		{FD20EBBA-F4C5-40D6-AD61-48A7EB255DAE}.Release|Any CPU.Build.0 = Release|Any CPU
+		{FD20EBBA-F4C5-40D6-AD61-48A7EB255DAE}.Release|x64.ActiveCfg = Release|Any CPU
+		{FD20EBBA-F4C5-40D6-AD61-48A7EB255DAE}.Release|x64.Build.0 = Release|Any CPU
+		{FD20EBBA-F4C5-40D6-AD61-48A7EB255DAE}.Release|x86.ActiveCfg = Release|Any CPU
+		{FD20EBBA-F4C5-40D6-AD61-48A7EB255DAE}.Release|x86.Build.0 = Release|Any CPU
+		{C654FC97-FBD1-43D7-9F61-35FDD1A4E0AD}.Debug|Any CPU.ActiveCfg = Debug|Any CPU
+		{C654FC97-FBD1-43D7-9F61-35FDD1A4E0AD}.Debug|Any CPU.Build.0 = Debug|Any CPU
+		{C654FC97-FBD1-43D7-9F61-35FDD1A4E0AD}.Debug|x64.ActiveCfg = Debug|Any CPU
+		{C654FC97-FBD1-43D7-9F61-35FDD1A4E0AD}.Debug|x64.Build.0 = Debug|Any CPU
+		{C654FC97-FBD1-43D7-9F61-35FDD1A4E0AD}.Debug|x86.ActiveCfg = Debug|Any CPU
+		{C654FC97-FBD1-43D7-9F61-35FDD1A4E0AD}.Debug|x86.Build.0 = Debug|Any CPU
+		{C654FC97-FBD1-43D7-9F61-35FDD1A4E0AD}.Release|Any CPU.ActiveCfg = Release|Any CPU
+		{C654FC97-FBD1-43D7-9F61-35FDD1A4E0AD}.Release|Any CPU.Build.0 = Release|Any CPU
+		{C654FC97-FBD1-43D7-9F61-35FDD1A4E0AD}.Release|x64.ActiveCfg = Release|Any CPU
+		{C654FC97-FBD1-43D7-9F61-35FDD1A4E0AD}.Release|x64.Build.0 = Release|Any CPU
+		{C654FC97-FBD1-43D7-9F61-35FDD1A4E0AD}.Release|x86.ActiveCfg = Release|Any CPU
+		{C654FC97-FBD1-43D7-9F61-35FDD1A4E0AD}.Release|x86.Build.0 = Release|Any CPU
+		{FFAE3A5E-B5AE-4CD0-ABF9-703C91F1C7D6}.Debug|Any CPU.ActiveCfg = Debug|Any CPU
+		{FFAE3A5E-B5AE-4CD0-ABF9-703C91F1C7D6}.Debug|Any CPU.Build.0 = Debug|Any CPU
+		{FFAE3A5E-B5AE-4CD0-ABF9-703C91F1C7D6}.Debug|x64.ActiveCfg = Debug|Any CPU
+		{FFAE3A5E-B5AE-4CD0-ABF9-703C91F1C7D6}.Debug|x64.Build.0 = Debug|Any CPU
+		{FFAE3A5E-B5AE-4CD0-ABF9-703C91F1C7D6}.Debug|x86.ActiveCfg = Debug|Any CPU
+		{FFAE3A5E-B5AE-4CD0-ABF9-703C91F1C7D6}.Debug|x86.Build.0 = Debug|Any CPU
+		{FFAE3A5E-B5AE-4CD0-ABF9-703C91F1C7D6}.Release|Any CPU.ActiveCfg = Release|Any CPU
+		{FFAE3A5E-B5AE-4CD0-ABF9-703C91F1C7D6}.Release|Any CPU.Build.0 = Release|Any CPU
+		{FFAE3A5E-B5AE-4CD0-ABF9-703C91F1C7D6}.Release|x64.ActiveCfg = Release|Any CPU
+		{FFAE3A5E-B5AE-4CD0-ABF9-703C91F1C7D6}.Release|x64.Build.0 = Release|Any CPU
+		{FFAE3A5E-B5AE-4CD0-ABF9-703C91F1C7D6}.Release|x86.ActiveCfg = Release|Any CPU
+		{FFAE3A5E-B5AE-4CD0-ABF9-703C91F1C7D6}.Release|x86.Build.0 = Release|Any CPU
+		{9CD3D75C-4E3C-40AC-A3D8-C32DD528DB7F}.Debug|Any CPU.ActiveCfg = Debug|Any CPU
+		{9CD3D75C-4E3C-40AC-A3D8-C32DD528DB7F}.Debug|Any CPU.Build.0 = Debug|Any CPU
+		{9CD3D75C-4E3C-40AC-A3D8-C32DD528DB7F}.Debug|x64.ActiveCfg = Debug|Any CPU
+		{9CD3D75C-4E3C-40AC-A3D8-C32DD528DB7F}.Debug|x64.Build.0 = Debug|Any CPU
+		{9CD3D75C-4E3C-40AC-A3D8-C32DD528DB7F}.Debug|x86.ActiveCfg = Debug|Any CPU
+		{9CD3D75C-4E3C-40AC-A3D8-C32DD528DB7F}.Debug|x86.Build.0 = Debug|Any CPU
+		{9CD3D75C-4E3C-40AC-A3D8-C32DD528DB7F}.Release|Any CPU.ActiveCfg = Release|Any CPU
+		{9CD3D75C-4E3C-40AC-A3D8-C32DD528DB7F}.Release|Any CPU.Build.0 = Release|Any CPU
+		{9CD3D75C-4E3C-40AC-A3D8-C32DD528DB7F}.Release|x64.ActiveCfg = Release|Any CPU
+		{9CD3D75C-4E3C-40AC-A3D8-C32DD528DB7F}.Release|x64.Build.0 = Release|Any CPU
+		{9CD3D75C-4E3C-40AC-A3D8-C32DD528DB7F}.Release|x86.ActiveCfg = Release|Any CPU
+		{9CD3D75C-4E3C-40AC-A3D8-C32DD528DB7F}.Release|x86.Build.0 = Release|Any CPU
+		{BE72541A-66A4-4958-9D19-56ACC7D3876B}.Debug|Any CPU.ActiveCfg = Debug|x64
+		{BE72541A-66A4-4958-9D19-56ACC7D3876B}.Debug|Any CPU.Build.0 = Debug|x64
+		{BE72541A-66A4-4958-9D19-56ACC7D3876B}.Debug|x64.ActiveCfg = Debug|x64
+		{BE72541A-66A4-4958-9D19-56ACC7D3876B}.Debug|x64.Build.0 = Debug|x64
+		{BE72541A-66A4-4958-9D19-56ACC7D3876B}.Debug|x86.ActiveCfg = Debug|x64
+		{BE72541A-66A4-4958-9D19-56ACC7D3876B}.Release|Any CPU.ActiveCfg = Release|x64
+		{BE72541A-66A4-4958-9D19-56ACC7D3876B}.Release|Any CPU.Build.0 = Release|x64
+		{BE72541A-66A4-4958-9D19-56ACC7D3876B}.Release|x64.ActiveCfg = Release|x64
+		{BE72541A-66A4-4958-9D19-56ACC7D3876B}.Release|x64.Build.0 = Release|x64
+		{BE72541A-66A4-4958-9D19-56ACC7D3876B}.Release|x86.ActiveCfg = Release|x64
+		{FBA0315B-076D-4470-AFB0-64C8AB4A65A9}.Debug|Any CPU.ActiveCfg = Debug|x86
+		{FBA0315B-076D-4470-AFB0-64C8AB4A65A9}.Debug|x64.ActiveCfg = Debug|x86
+		{FBA0315B-076D-4470-AFB0-64C8AB4A65A9}.Debug|x86.ActiveCfg = Debug|x86
+		{FBA0315B-076D-4470-AFB0-64C8AB4A65A9}.Debug|x86.Build.0 = Debug|x86
+		{FBA0315B-076D-4470-AFB0-64C8AB4A65A9}.Release|Any CPU.ActiveCfg = Release|x86
+		{FBA0315B-076D-4470-AFB0-64C8AB4A65A9}.Release|Any CPU.Build.0 = Release|x86
+		{FBA0315B-076D-4470-AFB0-64C8AB4A65A9}.Release|x64.ActiveCfg = Release|x86
+		{FBA0315B-076D-4470-AFB0-64C8AB4A65A9}.Release|x64.Build.0 = Release|x86
+		{FBA0315B-076D-4470-AFB0-64C8AB4A65A9}.Release|x86.ActiveCfg = Release|x86
+		{FBA0315B-076D-4470-AFB0-64C8AB4A65A9}.Release|x86.Build.0 = Release|x86
+		{653015B3-CC5A-4D1C-AAD3-1CE2A0C4D197}.Debug|Any CPU.ActiveCfg = Debug|Any CPU
+		{653015B3-CC5A-4D1C-AAD3-1CE2A0C4D197}.Debug|Any CPU.Build.0 = Debug|Any CPU
+		{653015B3-CC5A-4D1C-AAD3-1CE2A0C4D197}.Debug|x64.ActiveCfg = Debug|Any CPU
+		{653015B3-CC5A-4D1C-AAD3-1CE2A0C4D197}.Debug|x64.Build.0 = Debug|Any CPU
+		{653015B3-CC5A-4D1C-AAD3-1CE2A0C4D197}.Debug|x86.ActiveCfg = Debug|Any CPU
+		{653015B3-CC5A-4D1C-AAD3-1CE2A0C4D197}.Debug|x86.Build.0 = Debug|Any CPU
+		{653015B3-CC5A-4D1C-AAD3-1CE2A0C4D197}.Release|Any CPU.ActiveCfg = Release|Any CPU
+		{653015B3-CC5A-4D1C-AAD3-1CE2A0C4D197}.Release|Any CPU.Build.0 = Release|Any CPU
+		{653015B3-CC5A-4D1C-AAD3-1CE2A0C4D197}.Release|x64.ActiveCfg = Release|Any CPU
+		{653015B3-CC5A-4D1C-AAD3-1CE2A0C4D197}.Release|x64.Build.0 = Release|Any CPU
+		{653015B3-CC5A-4D1C-AAD3-1CE2A0C4D197}.Release|x86.ActiveCfg = Release|Any CPU
+		{653015B3-CC5A-4D1C-AAD3-1CE2A0C4D197}.Release|x86.Build.0 = Release|Any CPU
+		{7EE028A9-75A2-450F-A9A7-76559ED15419}.Debug|Any CPU.ActiveCfg = Debug|Any CPU
+		{7EE028A9-75A2-450F-A9A7-76559ED15419}.Debug|Any CPU.Build.0 = Debug|Any CPU
+		{7EE028A9-75A2-450F-A9A7-76559ED15419}.Debug|x64.ActiveCfg = Debug|Any CPU
+		{7EE028A9-75A2-450F-A9A7-76559ED15419}.Debug|x64.Build.0 = Debug|Any CPU
+		{7EE028A9-75A2-450F-A9A7-76559ED15419}.Debug|x86.ActiveCfg = Debug|Any CPU
+		{7EE028A9-75A2-450F-A9A7-76559ED15419}.Debug|x86.Build.0 = Debug|Any CPU
+		{7EE028A9-75A2-450F-A9A7-76559ED15419}.Release|Any CPU.ActiveCfg = Release|Any CPU
+		{7EE028A9-75A2-450F-A9A7-76559ED15419}.Release|Any CPU.Build.0 = Release|Any CPU
+		{7EE028A9-75A2-450F-A9A7-76559ED15419}.Release|x64.ActiveCfg = Release|Any CPU
+		{7EE028A9-75A2-450F-A9A7-76559ED15419}.Release|x64.Build.0 = Release|Any CPU
+		{7EE028A9-75A2-450F-A9A7-76559ED15419}.Release|x86.ActiveCfg = Release|Any CPU
+		{7EE028A9-75A2-450F-A9A7-76559ED15419}.Release|x86.Build.0 = Release|Any CPU
+	EndGlobalSection
+	GlobalSection(SolutionProperties) = preSolution
+		HideSolutionNode = FALSE
+	EndGlobalSection
+	GlobalSection(ExtensibilityGlobals) = postSolution
+		SolutionGuid = {4735EA49-310B-4478-BF26-64F03519DB48}
+	EndGlobalSection
+EndGlobal

MetaMorpheus/GUI/MainWindow.xaml

@@ -463,15 +463,15 @@
 
                     <!--Button to add spectra files-->
                     <Button Name="AddSpectraButton" Grid.Row="2" Content="+ADD SPECTRA" Click="AddSpectraFile_Click" HorizontalAlignment="Right" 
-                            Style="{StaticResource ImportantButtonStyle}" Margin="0,0,10,0"/>
+                             Style="{StaticResource ImportantButtonStyle}" Margin="0,0,10,0"/>
 
                     <Button Name="SetFileSpecificSettingsButton" Grid.Row="2" Content="SET FILE-SPECIFIC SETTINGS" Click="SetFileSpecificParameters_Click" 
                             HorizontalAlignment="Right" Style="{StaticResource ImportantButtonStyle}"
-                        Margin="0,0,211,0"/>
+                            Margin="0,0,211,0"/>
 
                     <Button Name="SetExperimentalDesignButton" Grid.Row="2" Content="SET EXPERIMENTAL DESIGN" Click="SetExperimentalDesign_Click" 
                             HorizontalAlignment="Right" Style="{StaticResource ImportantButtonStyle}"
-                        Margin="0,0,412,0"/>
+                            Margin="0,0,412,0"/>
 
                     <!--The list of spectra files-->
                     <DataGrid Name="dataGridSpectraFiles" ItemsSource="{Binding}" Grid.Row="3" Style="{StaticResource x:DataGridStyle}"

MetaMorpheus/GUI/TaskWindows/CalibrateTaskWindow.xaml

@@ -18,9 +18,14 @@
         </Grid.RowDefinitions>
         <ScrollViewer VerticalScrollBarVisibility="Auto">
             <DockPanel>
-                <StackPanel DockPanel.Dock="Top" Orientation="Horizontal">
+                <Grid DockPanel.Dock="Top" Margin="5,0,0,0">
+                    <Grid.ColumnDefinitions>
+                        <ColumnDefinition Width="Auto" />
+                        <ColumnDefinition Width="Auto" />
+                        <ColumnDefinition Width="*" />
+                    </Grid.ColumnDefinitions>
                     <Label Content="Task Name" />
-                    <TextBox x:Name="OutputFileNameTextBox" Width="150">
+                    <TextBox x:Name="OutputFileNameTextBox" Width="150" Grid.Column="1">
                         <TextBox.Style>
                             <Style TargetType="TextBox" xmlns:sys="clr-namespace:System;assembly=mscorlib">
                                 <Style.Resources>
@@ -44,7 +49,11 @@
                             </Style>
                         </TextBox.Style>
                     </TextBox>
-                </StackPanel>
+                    <!-- save settings -->
+                    <local:SaveSettingsControl x:Name="TaskSettingsCtrl" Grid.Column="2" HorizontalAlignment="Right"
+                                               DataContext="{Binding TaskSettingViewModel}" />
+                </Grid>
+
                 <GroupBox Header="Search Parameters" DockPanel.Dock="Top">
                     <Expander x:Name="SearchModeExpander">
                         <StackPanel>
@@ -422,7 +431,8 @@
         <StackPanel  Orientation="Horizontal" HorizontalAlignment="Center" Grid.Row="1" Margin="5">
             <Button x:Name="CancelButton" Content="Cancel" Click="CancelButton_Click" />
             <Button x:Name="SaveButton" Content="Save Calibrate Task" Click="SaveButton_Click" FontSize="24" />
-            <Button x:Name="SetDefaultbutton" Click="SaveAsDefault_Click" Width="100" >
+            <Button x:Name="setDefaultbutton" 
+                    Command="{Binding SaveAsDefaultSettingsCommand}"  Width="100" >
                 <TextBlock Text="Save As Default" TextWrapping="Wrap" TextAlignment="Center"/>
                 <ToolTipService.ToolTip>
                     <ToolTip Content="Save these parameters as the default. MetaMorpheus can return to original defaults by deleting the folder 'DefaultParameters'" ToolTipService.ShowDuration="999999" ToolTipService.InitialShowDelay="500" />

MetaMorpheus/GUI/TaskWindows/CalibrateTaskWindow.xaml.cs

@@ -28,6 +28,7 @@ public partial class CalibrateTaskWindow : Window
         private readonly ObservableCollection<ModTypeForLoc> LocalizeModTypeForTreeViewObservableCollection = new ObservableCollection<ModTypeForLoc>();
         private bool AutomaticallyAskAndOrUpdateParametersBasedOnProtease = true;
         private CustomFragmentationWindow CustomFragmentationWindow;
+        private TaskSettingViewModel TaskSettingViewModel;
 
         public CalibrateTaskWindow(CalibrationTask myCalibrateTask)
         {
@@ -36,8 +37,12 @@ public CalibrateTaskWindow(CalibrationTask myCalibrateTask)
 
             AutomaticallyAskAndOrUpdateParametersBasedOnProtease = false;
             PopulateChoices();
-            UpdateFieldsFromTask(TheTask);
+            var updateFieldsFromNewTaskAction = (MetaMorpheusTask task) => UpdateFieldsFromTask(task as CalibrationTask);
+            TaskSettingViewModel = new(TheTask, updateFieldsFromNewTaskAction, GetTaskFromGui);
+            TaskSettingsCtrl.DataContext = TaskSettingViewModel;
+            setDefaultbutton.DataContext = TaskSettingViewModel;
             AutomaticallyAskAndOrUpdateParametersBasedOnProtease = true;
+
 
             if (myCalibrateTask == null)
             {
@@ -187,15 +192,25 @@ private void CancelButton_Click(object sender, RoutedEventArgs e)
         }
 
         private void SaveButton_Click(object sender, RoutedEventArgs e)
+        {
+            CalibrationTask task = GetTaskFromGui();
+            if (task == null)
+                return;
+
+            TheTask = task;
+            DialogResult = true;
+        }
+
+        private CalibrationTask GetTaskFromGui()
         {
             string fieldNotUsed = "1";
 
             if (!GlobalGuiSettings.CheckTaskSettingsValidity(PrecursorMassToleranceTextBox.Text, ProductMassToleranceTextBox.Text, MissedCleavagesTextBox.Text,
                  MaxModificationIsoformsTextBox.Text, MinPeptideLengthTextBox.Text, MaxPeptideLengthTextBox.Text, MaxThreadsTextBox.Text, MinScoreAllowed.Text,
-                 fieldNotUsed, fieldNotUsed, fieldNotUsed, fieldNotUsed, fieldNotUsed, null, null, fieldNotUsed, MaxModsPerPeptideTextBox.Text, fieldNotUsed, 
+                 fieldNotUsed, fieldNotUsed, fieldNotUsed, fieldNotUsed, fieldNotUsed, null, null, fieldNotUsed, MaxModsPerPeptideTextBox.Text, fieldNotUsed,
                  null, null, null))
             {
-                return;
+                return null;
             }
 
             Protease protease = (Protease)ProteaseComboBox.SelectedItem;
@@ -226,7 +241,7 @@ private void SaveButton_Click(object sender, RoutedEventArgs e)
 
             if (!GlobalGuiSettings.VariableModCheck(listOfModsVariable))
             {
-                return;
+                return null;
             }
 
             var listOfModsFixed = new List<(string, string)>();
@@ -296,7 +311,7 @@ private void SaveButton_Click(object sender, RoutedEventArgs e)
             }
 
             TheTask.CalibrationParameters.WriteIndexedMzml = writeIndexMzmlCheckbox.IsChecked.Value;
-            DialogResult = true;
+            return TheTask;
         }
 
         private void CheckIfNumber(object sender, TextCompositionEventArgs e)
@@ -357,7 +372,7 @@ private void OnClosing(object sender, CancelEventArgs e)
             // remove event handler from timer
             // keeping it will trigger an exception because the closed window stops existing
 
-            CustomFragmentationWindow.Close();
+            CustomFragmentationWindow?.Close();
         }
 
         private void SaveAsDefault_Click(object sender, RoutedEventArgs e)

MetaMorpheus/GUI/TaskWindows/GPTMDTaskWindow.xaml

@@ -18,13 +18,19 @@
         </Grid.RowDefinitions>
         <ScrollViewer VerticalScrollBarVisibility="Auto">
             <DockPanel>
-                <StackPanel DockPanel.Dock="Top" Orientation="Horizontal">
+                <Grid DockPanel.Dock="Top" Margin="5,0,0,0">
+                    <Grid.ColumnDefinitions>
+                        <ColumnDefinition Width="Auto" />
+                        <ColumnDefinition Width="Auto" />
+                        <ColumnDefinition Width="*" />
+                    </Grid.ColumnDefinitions>
                     <Label Content="Task Name" />
-                    <TextBox x:Name="OutputFileNameTextBox" Width="150">
+                    <TextBox x:Name="OutputFileNameTextBox" Width="150" Grid.Column="1">
                         <TextBox.Style>
-                            <Style TargetType="TextBox" xmlns:sys="clr-namespace:System;assembly=mscorlib">
+                            <Style TargetType="TextBox">
                                 <Style.Resources>
-                                    <VisualBrush x:Key="CueBannerBrush" AlignmentX="Left" AlignmentY="Center" Stretch="None">
+                                    <VisualBrush x:Key="CueBannerBrush" AlignmentX="Left" AlignmentY="Center"
+                                                 Stretch="None">
                                         <VisualBrush.Visual>
                                             <Label Content="GPTMDTask" Foreground="Gray" />
                                         </VisualBrush.Visual>
@@ -44,7 +50,13 @@
                             </Style>
                         </TextBox.Style>
                     </TextBox>
-                </StackPanel>
+                    <!-- save settings -->
+                    <local:SaveSettingsControl x:Name="TaskSettingsCtrl" Grid.Column="2" HorizontalAlignment="Right"
+                                               DataContext="{Binding TaskSettingViewModel}" />
+
+                </Grid>
+
+
                 <GroupBox Header="File Loading Parameters" DockPanel.Dock="Top">
                     <Expander x:Name="FileLoadExpander" >
                         <StackPanel>
@@ -499,7 +511,8 @@
         <StackPanel  Orientation="Horizontal" HorizontalAlignment="Center" Grid.Row="1" Margin="5">
             <Button x:Name="cancelButton" Content="Cancel" Click="CancelButton_Click" />
             <Button x:Name="saveButton" Content="Save GPTMD task" Click="SaveButton_Click" FontSize="24" />
-            <Button x:Name="setDefaultbutton" Click="SaveAsDefault_Click" Width="100" >
+            <Button x:Name="setDefaultbutton" 
+                    Command="{Binding SaveAsDefaultSettingsCommand}"  Width="100" >
                 <TextBlock Text="Save As Default" TextWrapping="Wrap" TextAlignment="Center"/>
                 <ToolTipService.ToolTip>
                     <ToolTip Content="Save these parameters as the default. MetaMorpheus can return to original defaults by deleting the folder 'DefaultParameters'" ToolTipService.ShowDuration="999999" ToolTipService.InitialShowDelay="500" />