List of usage examples for com.vaadin.ui VerticalLayout setStyleName
@Override
public void setStyleName(String style)
From source file:probe.com.view.body.quantdatasetsoverview.diseasegroupsfilters.heatmap.HeatMapComponent.java
private VerticalLayout initDiseaseGroupLabel(String dName, int itemsNumb, boolean row) { VerticalLayout diseaseLabelContainer = new VerticalLayout(); Label label = new Label("<center><font color='#ffffff'>" + dName.replace("_", " ").replace("-", "'").replace("Disease", "") + "</font></center>"); label.setContentMode(ContentMode.HTML); if (row) {/* www .j av a 2s.co m*/ diseaseLabelContainer.setHeight((itemsNumb * heatmapCellWidth) + "px"); diseaseLabelContainer.setWidth("20px"); VerticalLayout rotateContainer = new VerticalLayout(); rotateContainer.setWidth((itemsNumb * heatmapCellWidth) + "px"); rotateContainer.setHeight("20px"); diseaseLabelContainer.addComponent(rotateContainer); rotateContainer.setStyleName("row_" + diseaseStyleMap.get(dName)); rotateContainer.addComponent(label); } else { diseaseLabelContainer.addComponent(label); diseaseLabelContainer.setWidth((itemsNumb * heatmapCellWidth) + "px"); diseaseLabelContainer.setHeight("20px"); diseaseLabelContainer.setStyleName(diseaseStyleMap.get(dName)); } diseaseLabelContainer.setDescription(dName.replace("_", " ").replace("-", "'")); return diseaseLabelContainer; }
From source file:probe.com.view.body.quantdatasetsoverview.diseasegroupsfilters.PopupInteractiveDSFiltersLayout.java
/** * * @param interactivePieChartFiltersContainerLayout *//*from w ww . j a v a 2 s. c o m*/ public PopupInteractiveDSFiltersLayout( final StudiesPieChartFiltersContainerLayout interactivePieChartFiltersContainerLayout) { VerticalLayout datasetExplorerFiltersIcon = new VerticalLayout(); // datasetExplorerFiltersIcon.setWidth("45px"); // datasetExplorerFiltersIcon.setHeight("24px"); // Label btnTitle = new Label("Studies"); // datasetExplorerFiltersIcon.addComponent(btnTitle); datasetExplorerFiltersIcon.setStyleName("studyexplorer"); datasetExplorerFiltersIcon.setDescription("Dataset expolorer filter"); this.addComponent(datasetExplorerFiltersIcon); this.setComponentAlignment(datasetExplorerFiltersIcon, Alignment.BOTTOM_LEFT); datasetExplorerFiltersIcon.addLayoutClickListener(PopupInteractiveDSFiltersLayout.this); this.setHeightUndefined(); int height = Page.getCurrent().getBrowserWindowHeight() - 100; int width = Page.getCurrent().getBrowserWindowWidth() - 100; VerticalLayout popupBody = new VerticalLayout(); popupBody.setWidth((width) + "px"); popupBody.setHeightUndefined(); popupBody.setStyleName(Reindeer.LAYOUT_WHITE); this.interactivePieChartFiltersContainerLayout = interactivePieChartFiltersContainerLayout; popupWindow = new Window() { @Override public void close() { interactivePieChartFiltersContainerLayout.updateSelectionManager(true); popupWindow.setVisible(false); } }; popupWindow.setContent(popupBody); popupWindow.setWindowMode(WindowMode.NORMAL); popupWindow.setWidth((width + 40) + "px"); popupWindow.setHeight((height) + "px"); popupWindow.setVisible(false); popupWindow.setResizable(false); popupWindow.setClosable(false); popupWindow.setStyleName(Reindeer.WINDOW_LIGHT); popupWindow.setModal(true); popupWindow.setDraggable(false); popupWindow.center(); popupWindow.setCaption( "<font color='gray' style='font-weight: bold;!important'> Dataset Explorer Filters</font>"); UI.getCurrent().addWindow(popupWindow); popupWindow.setPositionX(30); popupWindow.setPositionY(40); popupWindow.setCaptionAsHtml(true); popupWindow.setClosable(true); popupBody.setMargin(true); popupBody.setSpacing(true); popupBody.addComponent(interactivePieChartFiltersContainerLayout); }
From source file:probe.com.view.body.quantdatasetsoverview.diseasegroupsfilters.PopupRecombineDiseaseGroups.java
private void initPopupLayout() { int h = 0;//(default_DiseaseCat_DiseaseGroupMap.size() * 33) + 300; for (Map<String, String> m : default_DiseaseCat_DiseaseGroupMap.values()) { if (h < m.size()) { h = m.size();//w ww .j av a 2s .c om } } h = (h * 26) + 200; int w = 700; if (Page.getCurrent().getBrowserWindowHeight() - 280 < h) { h = Page.getCurrent().getBrowserWindowHeight() - 280; } if (Page.getCurrent().getBrowserWindowWidth() < w) { w = Page.getCurrent().getBrowserWindowWidth(); } popupWindow.setWidth(w + "px"); popupWindow.setHeight(h + "px"); popupBodyLayout.setWidth((w - 50) + "px"); Set<String> diseaseSet = Quant_Central_Manager.getDiseaseCategorySet(); diseaseTypeSelectionList.setDescription("Select disease category"); for (String disease : diseaseSet) { diseaseTypeSelectionList.addItem(disease); diseaseTypeSelectionList.setItemCaption(disease, (disease)); } HorizontalLayout diseaseCategorySelectLayout = new HorizontalLayout(); diseaseCategorySelectLayout.setWidthUndefined(); diseaseCategorySelectLayout.setHeight("50px"); diseaseCategorySelectLayout.setSpacing(true); diseaseCategorySelectLayout.setMargin(true); popupBodyLayout.addComponent(diseaseCategorySelectLayout); popupBodyLayout.setComponentAlignment(diseaseCategorySelectLayout, Alignment.TOP_LEFT); Label title = new Label("Disease Category"); title.setStyleName(Reindeer.LABEL_SMALL); diseaseCategorySelectLayout.addComponent(title); diseaseCategorySelectLayout.setComponentAlignment(title, Alignment.BOTTOM_CENTER); diseaseTypeSelectionList.setWidth("200px"); diseaseTypeSelectionList.setNullSelectionAllowed(false); diseaseTypeSelectionList.setValue("All"); diseaseTypeSelectionList.setImmediate(true); diseaseCategorySelectLayout.addComponent(diseaseTypeSelectionList); diseaseCategorySelectLayout.setComponentAlignment(diseaseTypeSelectionList, Alignment.TOP_LEFT); diseaseTypeSelectionList.setStyleName("diseaseselectionlist"); diseaseTypeSelectionList.addValueChangeListener(new Property.ValueChangeListener() { @Override public void valueChange(Property.ValueChangeEvent event) { boolean showAll = false; String value = event.getProperty().getValue().toString(); if (value.equalsIgnoreCase("All")) { showAll = true; } for (String dName : diseaseGroupsGridLayoutMap.keySet()) { if (dName.equalsIgnoreCase(value) || showAll) { diseaseGroupsGridLayoutMap.get(dName).setVisible(true); } else { diseaseGroupsGridLayoutMap.get(dName).setVisible(false); } } } }); VerticalLayout diseaseGroupsNamesContainer = new VerticalLayout(); diseaseGroupsNamesContainer.setWidth("100%"); diseaseGroupsNamesContainer.setHeightUndefined(); popupBodyLayout.addComponent(diseaseGroupsNamesContainer); diseaseGroupsNamesContainer.setStyleName(Reindeer.LAYOUT_WHITE); GridLayout diseaseNamesHeader = new GridLayout(2, 1); diseaseNamesHeader.setWidth("100%"); diseaseNamesHeader.setHeightUndefined(); diseaseNamesHeader.setSpacing(true); diseaseNamesHeader.setMargin(new MarginInfo(true, false, true, false)); diseaseGroupsNamesContainer.addComponent(diseaseNamesHeader); Label col1Label = new Label("Group Name"); diseaseNamesHeader.addComponent(col1Label, 0, 0); col1Label.setStyleName(Reindeer.LABEL_SMALL); Label col2Label = new Label("Suggested Name"); diseaseNamesHeader.addComponent(col2Label, 1, 0); col2Label.setStyleName(Reindeer.LABEL_SMALL); Panel diseaseGroupsNamesFrame = new Panel(); diseaseGroupsNamesFrame.setWidth("100%"); diseaseGroupsNamesFrame.setHeight((h - 200) + "px"); diseaseGroupsNamesContainer.addComponent(diseaseGroupsNamesFrame); diseaseGroupsNamesFrame.setStyleName(Reindeer.PANEL_LIGHT); VerticalLayout diseaseNamesUpdateContainerLayout = new VerticalLayout(); for (String diseaseCategory : diseaseSet) { if (diseaseCategory.equalsIgnoreCase("All")) { continue; } HorizontalLayout diseaseNamesUpdateContainer = initDiseaseNamesUpdateContainer(diseaseCategory); diseaseNamesUpdateContainerLayout.addComponent(diseaseNamesUpdateContainer); diseaseGroupsGridLayoutMap.put(diseaseCategory, diseaseNamesUpdateContainer); } diseaseGroupsNamesFrame.setContent(diseaseNamesUpdateContainerLayout); HorizontalLayout btnLayout = new HorizontalLayout(); btnLayout.setMargin(true); btnLayout.setSpacing(true); Button resetFiltersBtn = new Button("Reset"); resetFiltersBtn.setPrimaryStyleName("resetbtn"); btnLayout.addComponent(resetFiltersBtn); resetFiltersBtn.setWidth("50px"); resetFiltersBtn.setHeight("24px"); resetFiltersBtn.setDescription("Reset group names to default"); resetFiltersBtn.addClickListener(new Button.ClickListener() { @Override public void buttonClick(Button.ClickEvent event) { resetToDefault(); } }); Button resetToOriginalBtn = new Button("Publications Names"); resetToOriginalBtn.setPrimaryStyleName("resetbtn"); btnLayout.addComponent(resetToOriginalBtn); resetToOriginalBtn.setWidth("150px"); resetToOriginalBtn.setHeight("24px"); resetToOriginalBtn.setDescription("Reset group names to original publication names"); resetToOriginalBtn.addClickListener(new Button.ClickListener() { @Override public void buttonClick(Button.ClickEvent event) { resetToPublicationsNames(); } }); Button applyFilters = new Button("Update"); applyFilters.setDescription("Update disease groups with the selected names"); applyFilters.setPrimaryStyleName("resetbtn"); applyFilters.setWidth("50px"); applyFilters.setHeight("24px"); btnLayout.addComponent(applyFilters); applyFilters.addClickListener(new Button.ClickListener() { @Override public void buttonClick(Button.ClickEvent event) { updateGroups(); } }); popupBodyLayout.addComponent(btnLayout); popupBodyLayout.setComponentAlignment(btnLayout, Alignment.MIDDLE_RIGHT); resetToDefault(); }
From source file:probe.com.view.body.quantdatasetsoverview.diseasegroupsfilters.PopupRecombineDiseaseGroups.java
private HorizontalLayout initDiseaseNamesUpdateContainer(String diseaseCategory) { GridLayout diseaseNamesUpdateContainer = new GridLayout(2, (default_DiseaseCat_DiseaseGroupMap.get(diseaseCategory).size() * 2)); diseaseNamesUpdateContainer.setWidth("100%"); diseaseNamesUpdateContainer.setHeightUndefined(); diseaseNamesUpdateContainer.setSpacing(false); diseaseNamesUpdateContainer.setMargin(new MarginInfo(false, false, false, false)); int widthCalc = 0; int row = 0;//from www .j av a2s . c o m int col = 0; Map<String, ComboBox> diseaseGroupNameToListMap = new LinkedHashMap<String, ComboBox>(); for (String diseaseGroupName : default_DiseaseCat_DiseaseGroupMap.get(diseaseCategory).keySet()) { // if(!diseaseGroupName.contains(diseaseCategory)) // continue; diseaseNamesUpdateContainer.addComponent(generateLabel(diseaseGroupName, diseaseCategory), col, row); ComboBox list = generateLabelList(diseaseCategory); diseaseNamesUpdateContainer.addComponent(list, col + 1, row); diseaseGroupNameToListMap.put(diseaseGroupName, list); col = 0; row++; VerticalLayout spacer1 = new VerticalLayout(); spacer1.setHeight("2px"); spacer1.setWidth("300px"); spacer1.setStyleName(Reindeer.LAYOUT_WHITE); diseaseNamesUpdateContainer.addComponent(spacer1, col, row); VerticalLayout spacer2 = new VerticalLayout(); spacer2.setHeight("2px"); spacer2.setWidth("300px"); spacer2.setStyleName(Reindeer.LAYOUT_WHITE);//"lightgraylayout"); diseaseNamesUpdateContainer.addComponent(spacer2, col + 1, row); col = 0; row++; widthCalc += 26; } diseaseGroupsSelectionListMap.put(diseaseCategory, diseaseGroupNameToListMap); // widthCalc-=26; VerticalLayout diseaseLabelContainer = new VerticalLayout(); Label label = new Label("<center><font color='#ffffff'>" + diseaseCategory + "</font></center>"); label.setContentMode(ContentMode.HTML); diseaseLabelContainer.setHeight(widthCalc + "px"); diseaseLabelContainer.setWidth("20px"); VerticalLayout rotateContainer = new VerticalLayout(); rotateContainer.setWidth(widthCalc + "px"); rotateContainer.setHeight("20px"); diseaseLabelContainer.addComponent(rotateContainer); rotateContainer.setStyleName( "row_" + diseaseStyleMap.get(diseaseCategory.replace(" ", "_").replace("'", "-") + ("_Disease"))); rotateContainer.addComponent(label); HorizontalLayout layout = new HorizontalLayout(); layout.setSpacing(true); layout.addComponent(diseaseLabelContainer); layout.addComponent(diseaseNamesUpdateContainer); return layout; }
From source file:probe.com.view.body.quantdatasetsoverview.diseasegroupsfilters.popupreordergroups.SortableLayoutContainer.java
public final void initLists(Set<String> labels) { sortableDiseaseGroupLayout.removeAllComponents(); counterLayout.removeAllComponents(); diseaseGroupSelectOption.removeAllItems(); selectAllSet.clear();/* w w w .j ava 2s .co m*/ // fullSelectionSet.clear(); // fullSelectionSet.addAll(labels); int counter = 0; labelsLayoutSet.clear(); for (final VerticalLayout component : createComponents(labels)) { VerticalLayout container = new VerticalLayout(); container.setWidth(30 + "px"); container.setHeight("20px"); container.setStyleName("countItem"); Label label = new Label(counter + 1 + ""); container.addComponent(label); this.counterLayout.addComponent(container); sortableDiseaseGroupLayout.addComponent(component, strTitle); diseaseGroupSelectOption.addItem(counter); diseaseGroupSelectOption.setItemCaption(counter, ""); autoClear = true; diseaseGroupSelectOption.select(counter); selectAllSet.add(counter); counter++; } autoClear = false; }
From source file:probe.com.view.body.quantdatasetsoverview.quantproteinscomparisons.TrendLegend.java
private HorizontalLayout generateItemLabel(String label, String style) { HorizontalLayout labelLayout = new HorizontalLayout(); labelLayout.setSpacing(true);/* w w w .jav a 2s . com*/ labelLayout.setHeight("20px"); VerticalLayout icon = new VerticalLayout(); icon.setWidth("10px"); icon.setHeight("10px"); icon.setStyleName(style); labelLayout.addComponent(icon); labelLayout.setComponentAlignment(icon, Alignment.MIDDLE_LEFT); Label l = new Label("<font size='2' face='Verdana'>" + label + "</font>"); l.setContentMode(ContentMode.HTML); labelLayout.addComponent(l); return labelLayout; }
From source file:probe.com.view.body.quantdatasetsoverview.quantproteinstabsheet.peptidescontainer.popupcomponents.PeptideSequenceContainer.java
private void addTerminalLabels(int top, int width) { VerticalLayout nTerminalEdge = new VerticalLayout(); nTerminalEdge.setWidth("19px"); nTerminalEdge.setHeight("15px"); nTerminalEdge.setStyleName("terminal"); Label nLabel = new Label("N"); nLabel.setWidth("10px"); nLabel.setStyleName("ntermlayout"); nTerminalEdge.addComponent(nLabel);// w ww.ja v a2 s. c o m this.addComponent(nTerminalEdge, "left: " + (0) + "px; top: " + (top) + "px;"); VerticalLayout cTerminalEdge = new VerticalLayout(); cTerminalEdge.setWidth("20px"); cTerminalEdge.setHeight("15px"); cTerminalEdge.setStyleName("terminal"); Label cLabel = new Label("C"); cLabel.setStyleName("ctermlayout"); cTerminalEdge.addComponent(cLabel); cLabel.setWidth("10px"); cTerminalEdge.setComponentAlignment(cLabel, Alignment.TOP_RIGHT); this.addComponent(cTerminalEdge, "left: " + (width - 21) + "px; top: " + (top) + "px;"); }
From source file:probe.com.view.body.quantdatasetsoverview.quantproteinstabsheet.peptidescontainer.popupcomponents.PeptideSequenceContainer.java
private void checkAndMerge() { TreeMap<Integer, StackedBarPeptideComponent> finalUpdatedPeptidesCoverageMap = new TreeMap<Integer, StackedBarPeptideComponent>(); TreeMap<Integer, StackedBarPeptideComponent> orderedCompoMap = new TreeMap<Integer, StackedBarPeptideComponent>(); for (StackedBarPeptideComponent peptideLayout : allPeptidesStackedBarComponentsMap) { if (orderedCompoMap.containsKey(peptideLayout.getX0())) { StackedBarPeptideComponent toReplaceComp = orderedCompoMap.remove(peptideLayout.getX0()); if (toReplaceComp.getWidthArea() <= peptideLayout.getWidthArea()) { orderedCompoMap.put(peptideLayout.getX0(), peptideLayout); } else { orderedCompoMap.put(toReplaceComp.getX0(), toReplaceComp); }//from www .j a v a 2 s .com } else { orderedCompoMap.put(peptideLayout.getX0(), peptideLayout); } } if (orderedCompoMap.size() == 1) { StackedBarPeptideComponent peptideI = orderedCompoMap.firstEntry().getValue(); finalUpdatedPeptidesCoverageMap.put(peptideI.getX0(), peptideI); } else { TreeMap<Integer, StackedBarPeptideComponent> refrenceOrderedCompoMap = new TreeMap<Integer, StackedBarPeptideComponent>( orderedCompoMap); while (true) { boolean merge = false; for (int keyI : orderedCompoMap.navigableKeySet()) { StackedBarPeptideComponent peptideI = orderedCompoMap.get(keyI); TreeMap<Integer, StackedBarPeptideComponent> comparableOrderedCompoMap = new TreeMap<Integer, StackedBarPeptideComponent>( refrenceOrderedCompoMap); comparableOrderedCompoMap.remove(keyI); for (int keyII : comparableOrderedCompoMap.navigableKeySet()) { StackedBarPeptideComponent peptideII = comparableOrderedCompoMap.get(keyII); if (((Integer) peptideII.getParam("start")) == ((Integer) peptideI.getParam("end") + 1) || (((Integer) peptideI.getParam("start")) == ((Integer) peptideII.getParam("end") + 1))) { // int x0 = Math.min(peptideI.getX0(), peptideII.getX0()); int widthArea = peptideI.getWidthArea() + peptideII.getWidthArea(); String sequence; if (peptideI.getX0() < peptideII.getX0()) { sequence = peptideI.getParam("sequence").toString() + peptideII.getParam("sequence"); } else { sequence = peptideII.getParam("sequence").toString() + peptideI.getParam("sequence"); } StackedBarPeptideComponent updatedCoverComp = new StackedBarPeptideComponent(x0, widthArea, "", ""); refrenceOrderedCompoMap.remove(keyI); refrenceOrderedCompoMap.remove(keyII); updatedCoverComp.setParam("sequence", sequence); updatedCoverComp.setParam("start", Math.min(((Integer) peptideI.getParam("start")), ((Integer) peptideII.getParam("start")))); updatedCoverComp.setParam("end", Math.max(((Integer) peptideI.getParam("end")), ((Integer) peptideII.getParam("end")))); refrenceOrderedCompoMap.put(x0 + 10000, updatedCoverComp); merge = true; break; } else if (((Integer) peptideII.getParam("start") > (Integer) peptideI.getParam("start")) && ((Integer) peptideII.getParam("end") > (Integer) peptideI.getParam("end")) && ((Integer) peptideII.getParam("start") < (Integer) peptideI.getParam("end"))) { //// int x0 = Math.min(peptideI.getX0(), peptideII.getX0()); int widthArea = 0; String sequence; if (peptideI.getX0() < peptideII.getX0()) { sequence = peptideI.getParam("sequence").toString() + peptideII.getParam("sequence"); widthArea = peptideII.getWidthArea() + (peptideII.getX0() - peptideI.getX0()); } else { sequence = peptideII.getParam("sequence").toString() + peptideI.getParam("sequence"); widthArea = peptideI.getWidthArea() + (peptideI.getX0() - peptideII.getX0()); } StackedBarPeptideComponent updatedCoverComp = new StackedBarPeptideComponent(x0, widthArea, "", ""); refrenceOrderedCompoMap.remove(keyI); refrenceOrderedCompoMap.remove(keyII); updatedCoverComp.setParam("sequence", sequence); updatedCoverComp.setParam("start", Math.min(((Integer) peptideI.getParam("start")), ((Integer) peptideII.getParam("start")))); updatedCoverComp.setParam("end", Math.max(((Integer) peptideI.getParam("end")), ((Integer) peptideII.getParam("end")))); refrenceOrderedCompoMap.put(x0 + 10000, updatedCoverComp); merge = true; break; } else if (((Integer) peptideII.getParam("start") > (Integer) peptideI.getParam("start")) && ((Integer) peptideII.getParam("end") <= (Integer) peptideI.getParam("end"))) { int x0 = Math.min(peptideI.getX0(), peptideII.getX0()); int widthArea = 0; String sequence; if (peptideI.getParam("sequence").toString() .contains(peptideII.getParam("sequence").toString())) { widthArea = peptideI.getWidthArea(); sequence = peptideI.getParam("sequence").toString(); } else { widthArea = peptideII.getWidthArea(); sequence = peptideII.getParam("sequence").toString(); } StackedBarPeptideComponent updatedCoverComp = new StackedBarPeptideComponent(x0, widthArea, "", ""); refrenceOrderedCompoMap.remove(keyI); refrenceOrderedCompoMap.remove(keyII); updatedCoverComp.setParam("sequence", sequence); updatedCoverComp.setParam("start", Math.min(((Integer) peptideI.getParam("start")), ((Integer) peptideII.getParam("start")))); updatedCoverComp.setParam("end", Math.max(((Integer) peptideI.getParam("end")), ((Integer) peptideII.getParam("end")))); refrenceOrderedCompoMap.put(x0 + 10000, updatedCoverComp); merge = true; break; } } } if (merge) { orderedCompoMap.clear(); orderedCompoMap.putAll(refrenceOrderedCompoMap); } else { break; } } finalUpdatedPeptidesCoverageMap.putAll(refrenceOrderedCompoMap); } // LinkedHashMap<Integer, Integer> startEndMap = new LinkedHashMap<Integer, Integer>(); // LinkedHashMap<Integer, StackedBarPeptideComponent> stackedPepSet = new LinkedHashMap<Integer, StackedBarPeptideComponent>(); // LinkedHashMap<Integer, StackedBarPeptideComponent> orderedCompoMap = new LinkedHashMap<Integer, StackedBarPeptideComponent>(); // for (StackedBarPeptideComponent peptideLayout : allPeptidesStackedBarComponentsMap) { // int start = (Integer) peptideLayout.getParam("start"); // int end = (Integer) peptideLayout.getParam("end"); // if (!startEndMap.containsKey(start)) { // int x0 = peptideLayout.getX0(); // int widthArea = peptideLayout.getWidthArea(); // String sequence = peptideLayout.getParam("sequence").toString(); // StackedBarPeptideComponent updatedCoverComp = new StackedBarPeptideComponent(x0, widthArea, "", ""); // updatedCoverComp.setParam("sequence", sequence); // updatedCoverComp.setParam("start", peptideLayout.getParam("start")); // updatedCoverComp.setParam("end", peptideLayout.getParam("end")); // startEndMap.put(start, end); // stackedPepSet.put(start, peptideLayout); // } else { // StackedBarPeptideComponent updatedCoverComp = stackedPepSet.remove(start); // int x0 = peptideLayout.getX0(); // int widthArea ; // String sequence; // if (updatedCoverComp.getParam("sequence").toString().contains(peptideLayout.getParam("sequence").toString())) { // widthArea = updatedCoverComp.getWidthArea(); // sequence = updatedCoverComp.getParam("sequence").toString(); // } else { // widthArea = peptideLayout.getWidthArea(); // sequence = peptideLayout.getParam("sequence").toString(); // } // // StackedBarPeptideComponent updatedCoverCompI = new StackedBarPeptideComponent(x0, widthArea, "", ""); // updatedCoverCompI.setParam("sequence", sequence); // updatedCoverCompI.setParam("start", peptideLayout.getParam("start")); // updatedCoverCompI.setParam("end", Math.max((Integer)peptideLayout.getParam("end"),(Integer)updatedCoverComp.getParam("end"))); // startEndMap.put(start,(Integer) updatedCoverCompI.getParam("end")); // stackedPepSet.put(start, updatedCoverCompI); // // } // // } for (StackedBarPeptideComponent peptideLayout : finalUpdatedPeptidesCoverageMap.values()) { VerticalLayout coverageComp = new VerticalLayout(); coverageComp.setStyleName("vdarkgray"); coverageComp.setHeight("15px"); coverageComp.setWidth(peptideLayout.getWidth(), peptideLayout.getWidthUnits()); coverageComp.setDescription("" + peptideLayout.getParam("start") + "-" + peptideLayout.getParam("sequence") + "-" + peptideLayout.getParam("end")); coveragePeptidesSequencesBar.addComponent(coverageComp, "left: " + (peptideLayout.getX0() - 20) + "px; top: " + (0) + "px;"); } }
From source file:probe.com.view.body.quantdatasetsoverview.quantproteinstabsheet.studies.PeptidesComparisonsSequenceLayout.java
/** * * @param cp/*from w w w. j av a2 s .c o m*/ * @param width * @param Quant_Central_Manager */ public PeptidesComparisonsSequenceLayout(QuantCentralManager Quant_Central_Manager, final DiseaseGroupsComparisonsProteinLayout cp, int width) { this.studiesMap = new LinkedHashMap<String, StudyInfoData>(); this.setColumns(4); this.setRows(3); this.setWidthUndefined(); this.setSpacing(true); this.setMargin(new MarginInfo(true, false, false, false)); comparisonTitle = new Label(); comparisonTitle.setContentMode(ContentMode.HTML); comparisonTitle.setStyleName("custChartLabelHeader"); comparisonTitle.setWidth((width - 55) + "px"); this.addComponent(comparisonTitle, 1, 0); this.setComponentAlignment(comparisonTitle, Alignment.TOP_LEFT); closeBtn = new VerticalLayout(); closeBtn.setWidth("20px"); closeBtn.setHeight("20px"); closeBtn.setStyleName("closebtn"); this.addComponent(closeBtn, 2, 0); this.setComponentAlignment(closeBtn, Alignment.TOP_RIGHT); //end of toplayout //init comparison study layout GridLayout proteinSequenceComparisonsContainer = new GridLayout(2, cp.getComparison().getDatasetIndexes().length); proteinSequenceComparisonsContainer.setWidthUndefined(); proteinSequenceComparisonsContainer.setHeightUndefined(); proteinSequenceComparisonsContainer.setStyleName(Reindeer.LAYOUT_WHITE); proteinSequenceComparisonsContainer.setSpacing(true); proteinSequenceComparisonsContainer.setMargin(new MarginInfo(true, false, false, false)); this.addComponent(proteinSequenceComparisonsContainer, 1, 1); coverageWidth = (width - 100 - 180); Map<Integer, Set<QuantPeptide>> dsQuantPepMap = new HashMap<Integer, Set<QuantPeptide>>(); for (QuantPeptide quantPep : cp.getQuantPeptidesList()) { if (!dsQuantPepMap.containsKey(quantPep.getDsKey())) { Set<QuantPeptide> subList = new HashSet<QuantPeptide>(); dsQuantPepMap.put(quantPep.getDsKey(), subList); } Set<QuantPeptide> subList = dsQuantPepMap.get(quantPep.getDsKey()); subList.add(quantPep); dsQuantPepMap.put(quantPep.getDsKey(), subList); } int numb = 0; int panelWidth = Page.getCurrent().getBrowserWindowWidth() - 100; String groupCompTitle = cp.getComparison().getComparisonHeader(); String updatedHeader = groupCompTitle.split(" / ")[0].split("\n")[0] + " / " + groupCompTitle.split(" / ")[1].split("\n")[0];//+ " ( " + groupCompTitle.split(" / ")[1].split("\n")[1] + " )"; ; final StudyInformationPopupComponent studyInformationPopupPanel = new StudyInformationPopupComponent( panelWidth, cp.getProtName(), cp.getUrl(), cp.getComparison().getComparisonFullName()); studyInformationPopupPanel.setVisible(false); LayoutEvents.LayoutClickListener studyListener = new LayoutEvents.LayoutClickListener() { @Override public void layoutClick(LayoutEvents.LayoutClickEvent event) { Integer dsId; if (event.getComponent() instanceof AbsoluteLayout) { dsId = (Integer) ((AbsoluteLayout) event.getComponent()).getData(); } else { dsId = (Integer) ((VerticalLayout) event.getComponent()).getData(); } studyInformationPopupPanel.updateContent(dsToStudyLayoutMap.get(dsId)); } }; TreeSet<QuantProtein> orderSet = new TreeSet<QuantProtein>(cp.getDsQuantProteinsMap().values()); for (QuantProtein quantProtein : orderSet) { StudyInfoData exportData = new StudyInfoData(); exportData.setCoverageWidth(coverageWidth); Label studyTitle = new Label();//"Study " + (numb + 1)); studyTitle.setStyleName("peptideslayoutlabel"); studyTitle.setHeightUndefined(); studyTitle.setWidth("200px"); Label iconTitle = new Label("#Patients (" + (quantProtein.getPatientsGroupIINumber() + quantProtein.getPatientsGroupINumber()) + ")"); exportData.setSubTitle(iconTitle.getValue()); iconTitle.setStyleName("peptideslayoutlabel"); iconTitle.setHeightUndefined(); if (quantProtein.getStringPValue().equalsIgnoreCase("Not Significant") || quantProtein.getStringFCValue().equalsIgnoreCase("Not regulated")) { iconTitle.setStyleName("notregicon"); exportData.setTrend(0); } else if (quantProtein.getStringFCValue().equalsIgnoreCase("Decreased")) { iconTitle.setStyleName("downarricon"); exportData.setTrend(-1); } else { exportData.setTrend(1); iconTitle.setStyleName("uparricon"); } iconTitle.setDescription(cp.getProteinAccssionNumber() + " : #Patients (" + (quantProtein.getPatientsGroupIINumber() + quantProtein.getPatientsGroupINumber()) + ") " + quantProtein.getStringFCValue() + " " + quantProtein.getStringPValue() + ""); VerticalLayout labelContainer = new VerticalLayout(); labelContainer.addComponent(studyTitle); labelContainer.addComponent(iconTitle); proteinSequenceComparisonsContainer.addComponent(labelContainer, 0, numb); proteinSequenceComparisonsContainer.setComponentAlignment(labelContainer, Alignment.TOP_CENTER); Map<Integer, ComparisonDetailsBean> patientGroupsNumToDsIdMap = new HashMap<Integer, ComparisonDetailsBean>(); ComparisonDetailsBean pGr = new ComparisonDetailsBean(); patientGroupsNumToDsIdMap .put((quantProtein.getPatientsGroupIINumber() + quantProtein.getPatientsGroupINumber()), pGr); QuantDatasetObject ds; ds = Quant_Central_Manager.getFullQuantDatasetMap().get(quantProtein.getDsKey()); StudyPopupLayout study = new StudyPopupLayout(panelWidth, quantProtein, ds, cp.getProteinAccssionNumber(), cp.getUrl(), cp.getProtName(), Quant_Central_Manager.getDiseaseHashedColorMap()); Set<QuantDatasetObject> qdsSet = new HashSet<QuantDatasetObject>(); qdsSet.add(ds); study.setInformationData(qdsSet, cp); dsToStudyLayoutMap.put(ds.getDsKey(), study); labelContainer.addLayoutClickListener(studyListener); labelContainer.setData(ds.getDsKey()); studyTitle.setValue("[" + (numb + 1) + "] " + ds.getAuthor()); exportData.setTitle(ds.getAuthor()); if (dsQuantPepMap.get(quantProtein.getDsKey()) == null) { Label noPeptidesInfoLabel = new Label("No Peptide Information Available "); noPeptidesInfoLabel.setHeightUndefined(); noPeptidesInfoLabel.setStyleName("peptideslayoutlabel"); VerticalLayout labelValueContainer = new VerticalLayout(); labelValueContainer.addComponent(noPeptidesInfoLabel); labelValueContainer.addLayoutClickListener(studyListener); labelValueContainer.setData(ds.getDsKey()); proteinSequenceComparisonsContainer.addComponent(labelValueContainer, 1, numb); proteinSequenceComparisonsContainer.setComponentAlignment(labelValueContainer, Alignment.TOP_CENTER); numb++; studiesMap.put((numb + 1) + ds.getAuthor(), exportData); continue; } String key = "_-_" + quantProtein.getDsKey() + "_-_" + cp.getProteinAccssionNumber() + "_-_"; PeptidesInformationOverviewLayout peptideInfoLayout = new PeptidesInformationOverviewLayout( cp.getSequence(), dsQuantPepMap.get(quantProtein.getDsKey()), coverageWidth, true, studyListener, ds.getDsKey()); exportData.setPeptidesInfoList(peptideInfoLayout.getStackedPeptides()); exportData.setLevelsNumber(peptideInfoLayout.getLevel()); hasPTM = peptideInfoLayout.isHasPTM(); peptidesInfoLayoutDSIndexMap.put(key, peptideInfoLayout); proteinSequenceComparisonsContainer.addComponent(peptideInfoLayout, 1, numb); numb++; studiesMap.put((numb + 1) + ds.getAuthor(), exportData); } String rgbColor = Quant_Central_Manager .getDiseaseHashedColor(groupCompTitle.split(" / ")[1].split("\n")[1]); comparisonTitle.setValue("<font color='" + rgbColor + "' style='font-weight: bold;'>" + updatedHeader + " (#Datasets " + numb + "/" + cp.getComparison().getDatasetIndexes().length + ")</font>"); comparisonTitle.setDescription(cp.getComparison().getComparisonFullName()); VerticalLayout bottomSpacer = new VerticalLayout(); bottomSpacer.setWidth((width - 100) + "px"); bottomSpacer.setHeight("10px"); bottomSpacer.setStyleName("dottedline"); this.addComponent(bottomSpacer, 1, 2); }
From source file:probe.com.view.body.welcomelayout.PublicationsInformationWindow.java
public PublicationsInformationWindow(List<Object[]> publicationList) { int height = Page.getCurrent().getBrowserWindowHeight() - 100; int width = Page.getCurrent().getBrowserWindowWidth() - 100; int columnNum = width / 250; width = columnNum * 250;//from w w w. j ava2 s .c o m VerticalLayout popupBodyWrapper = new VerticalLayout(); popupBodyWrapper.setWidth("100%"); popupBodyWrapper.setHeight("100%"); VerticalLayout popupBody = new VerticalLayout(); popupBody.setWidth((width) + "px"); popupBody.setHeightUndefined(); popupBody.setStyleName(Reindeer.LAYOUT_WHITE); popupBody.setMargin(true); popupBody.setSpacing(true); popupBodyWrapper.addComponent(popupBody); popupBodyWrapper.setComponentAlignment(popupBody, Alignment.TOP_CENTER); popupWindow = new Window() { @Override public void close() { popupWindow.setVisible(false); } }; popupWindow.setContent(popupBodyWrapper); popupWindow.setWindowMode(WindowMode.NORMAL); popupWindow.setWidth((width + 22) + "px"); popupWindow.setVisible(false); popupWindow.setResizable(false); popupWindow.setClosable(false); popupWindow.setStyleName(Reindeer.WINDOW_LIGHT); popupWindow.setModal(true); popupWindow.setDraggable(false); popupWindow.setCaption( "<font color='gray' style='font-weight: bold;!important'> Publication Information</font>"); UI.getCurrent().addWindow(popupWindow); popupWindow.center(); popupWindow.setCaptionAsHtml(true); popupWindow.setClosable(true); GridLayout publicationContainer = new GridLayout(); publicationContainer.setWidth("100%"); publicationContainer.setSpacing(true); publicationContainer.setMargin(true); popupBody.addComponent(publicationContainer); publicationContainer.setColumns(columnNum); publicationContainer.setRows(publicationList.size()); this.addLayoutClickListener(PublicationsInformationWindow.this); int row = 0; int col = 0; for (Object[] obj : publicationList) { VerticalLayout publicationLayout = initPublicationLayout(obj); String btnName = "<font size=1 >" + obj[0].toString() + "</font><br/>" + obj[1].toString() + "<br/><font size=1 >" + obj[2].toString() + "</font><br/><font size=1 >#Proteins: " + obj[5].toString() /*+ "/" + obj[5].toString() + */ + " #Peptides: " + obj[7].toString() /*+ "/" + obj[7].toString() +*/ + "</font>"; PopupInfoBtn publicationBtn = new PopupInfoBtn(publicationLayout, btnName, obj[1].toString()); publicationContainer.addComponent(publicationBtn, col++, row); publicationContainer.setComponentAlignment(publicationBtn, Alignment.TOP_CENTER); if (col >= columnNum) { row++; col = 0; } } height = Math.min((++row * 85) + 200, height); popupWindow.setHeight((height) + "px"); }