private IEnumerable <GraphDataProperties> GetPropertyVariants(AreaCVGraphSettings graphSettings) { SrmDocument document; lock (_cacheInfo) { document = _cacheInfo.Document; } var annotationsArray = AnnotationHelper.GetPossibleAnnotations(document, graphSettings.Group); // Add an entry for All var annotations = annotationsArray.Concat(new string[] { null }).ToList(); var normalizationMethods = new List <NormalizeOption>(NormalizeOption.AvailableNormalizeOptions(document).Prepend(NormalizeOption.NONE)); // First cache the histograms for the current annotation if (annotations.Remove(graphSettings.Annotation)) { annotations.Insert(0, graphSettings.Annotation); } foreach (var n in normalizationMethods) { if (n.IsRatioToLabel && !document.Settings.PeptideSettings.Modifications.HasHeavyModifications) { continue; } foreach (var a in annotations) { var minDetections = GetMinDetectionsForAnnotation(document, graphSettings, a); for (var i = 2; i <= minDetections; ++i) { yield return(new GraphDataProperties(graphSettings.Group, n, a, i)); } } } }
public override void UpdateUI() { var document = _graphSummary.DocumentUIContainer.DocumentUI; if (!document.Settings.HasResults) { return; } var groupsVisible = AreaGraphController.GroupByGroup != null; toolStripLabel1.Visible = toolStripComboGroup.Visible = groupsVisible; var detectionsVisiblePrev = toolStripLabel2.Visible && toolStripNumericDetections.Visible && toolStripLabel3.Visible; var detectionsVisible = AreaGraphController.ShouldUseQValues(document); toolStripLabel2.Visible = toolStripNumericDetections.Visible = toolStripLabel3.Visible = detectionsVisible; if (detectionsVisible) { toolStripNumericDetections.NumericUpDownControl.Minimum = 2; if (AreaGraphController.GroupByGroup == null || AreaGraphController.GroupByAnnotation == null) { toolStripNumericDetections.NumericUpDownControl.Maximum = document.MeasuredResults.Chromatograms.Count; } else { toolStripNumericDetections.NumericUpDownControl.Maximum = AnnotationHelper.GetReplicateIndices(document, ReplicateValue.FromPersistedString(document.Settings, AreaGraphController.GroupByGroup), AreaGraphController.GroupByAnnotation).Length; } if (!detectionsVisiblePrev) { toolStripNumericDetections.NumericUpDownControl.Value = 2; } } if (groupsVisible) { var annotations = new[] { Resources.GraphSummary_UpdateToolbar_All }.Concat( AnnotationHelper.GetPossibleAnnotations(document, ReplicateValue.FromPersistedString(document.Settings, AreaGraphController.GroupByGroup)) .Except(new object[] { null })).ToArray(); toolStripComboGroup.Items.Clear(); // ReSharper disable once CoVariantArrayConversion toolStripComboGroup.Items.AddRange(annotations); if (AreaGraphController.GroupByAnnotation != null) { toolStripComboGroup.SelectedItem = AreaGraphController.GroupByAnnotation; } else { toolStripComboGroup.SelectedIndex = 0; } ComboHelper.AutoSizeDropDown(toolStripComboGroup); } toolStripComboNormalizedTo.Items.Clear(); _normalizationMethods.Clear(); _normalizationMethods.Add(NormalizeOption.DEFAULT); _normalizationMethods.AddRange(NormalizeOption.AvailableNormalizeOptions(_graphSummary.DocumentUIContainer.DocumentUI)); _normalizationMethods.Add(NormalizeOption.NONE); toolStripComboNormalizedTo.Items.AddRange(_normalizationMethods.Select(item => item.Caption).ToArray()); toolStripComboNormalizedTo.SelectedIndex = _normalizationMethods.IndexOf(AreaGraphController.AreaCVNormalizeOption); ComboHelper.AutoSizeDropDown(toolStripComboNormalizedTo); }
public RefineDlg(IDocumentUIContainer documentContainer) { _document = documentContainer.DocumentUI; _settings = documentContainer.DocumentUI.Settings; DocumentContainer = documentContainer; InitializeComponent(); Icon = Resources.Skyline; // Save text for later use _removeLabelText = labelLabelType.Text; _removeTipText = helpTip.GetToolTip(comboRefineLabelType); // Fill label type comb_o box comboRefineLabelType.Items.Add(string.Empty); comboRefineLabelType.Items.Add(IsotopeLabelType.LIGHT_NAME); foreach (var typedMods in _settings.PeptideSettings.Modifications.GetHeavyModifications()) { comboRefineLabelType.Items.Add(typedMods.LabelType.Name); } comboRefineLabelType.SelectedIndex = 0; comboReplicateUse.SelectedIndex = 0; if (!_settings.HasResults) { FormUtil.RemoveTabPage(tabResults, helpTip); } if (!_settings.HasResults || _settings.MeasuredResults.Chromatograms.Count < 2) { FormUtil.RemoveTabPage(tabConsistency, helpTip); } else { // Consistency tab textQVal.Enabled = _settings.PeptideSettings.Integration.PeakScoringModel.IsTrained; numericUpDownDetections.Enabled = textQVal.Enabled; if (numericUpDownDetections.Enabled) { numericUpDownDetections.Minimum = 1; numericUpDownDetections.Maximum = _document.MeasuredResults.Chromatograms.Count; numericUpDownDetections.Value = 1; } _normalizationMethods.Clear(); _normalizationMethods.Add(NormalizeOption.DEFAULT); _normalizationMethods.AddRange(NormalizeOption.AvailableNormalizeOptions(_document)); _normalizationMethods.Add(NormalizeOption.NONE); comboNormalizeTo.Items.Clear(); comboNormalizeTo.Items.AddRange(_normalizationMethods.Select(option => option.Caption).ToArray()); comboNormalizeTo.SelectedIndex = comboNormalizeTo.Items.Count - 1; comboTransitions.Items.Add(Resources.RefineDlg_RefineDlg_all); comboTransitions.Items.Add(Resources.RefineDlg_RefineDlg_best); comboTransitions.SelectedIndex = 0; var maxTrans = _document.MoleculeTransitionGroups.Select(g => g.TransitionCount).DefaultIfEmpty().Max(); for (int i = 1; i <= maxTrans; i++) { comboTransitions.Items.Add(i); } if (_document.MoleculeTransitions.Any(t => t.IsMs1)) { comboTransType.Items.Add(Resources.RefineDlg_RefineDlg_Precursors); comboTransType.SelectedIndex = comboTransType.Items.Count - 1; } if (_document.MoleculeTransitions.Any(t => !t.IsMs1)) { comboTransType.Items.Add(Resources.RefineDlg_RefineDlg_Products); comboTransType.SelectedIndex = comboTransType.Items.Count - 1; } if (comboTransType.Items.Count == 1) { comboTransType.Enabled = false; } } if (_settings.PeptideSettings.Libraries.HasLibraries) { labelMinDotProduct.Enabled = textMinDotProduct.Enabled = groupLibCorr.Enabled = true; } if (_settings.TransitionSettings.FullScan.IsHighResPrecursor) { labelMinIdotProduct.Enabled = textMinIdotProduct.Enabled = groupLibCorr.Enabled = true; } // Group Comparisons _groupComparisonsListBoxDriver = new SettingsListBoxDriver <GroupComparisonDef>( checkedListBoxGroupComparisons, Settings.Default.GroupComparisonDefList); _groupComparisonsListBoxDriver.LoadList( _document.Settings.DataSettings.GroupComparisonDefs); if (_document.PeptideTransitions.Any(t => t.IsMs1)) { comboMSGroupComparisons.Items.Add(Resources.RefineDlg_MSLevel_1); comboMSGroupComparisons.SelectedIndex = comboMSGroupComparisons.Items.Count - 1; } if (_document.PeptideTransitions.Any(t => !t.IsMs1)) { comboMSGroupComparisons.Items.Add(Resources.RefineDlg_MSLevel_2); comboMSGroupComparisons.SelectedIndex = comboMSGroupComparisons.Items.Count - 1; } if (comboMSGroupComparisons.Items.Count == 1) { comboMSGroupComparisons.Enabled = false; } }