Java tutorial
// PathVisio, // a tool for data visualization and analysis using Biological Pathways // Copyright 2006-2011 BiGCaT Bioinformatics // // Licensed under the Apache License, Version 2.0 (the "License"); // you may not use this file except in compliance with the License. // You may obtain a copy of the License at // // http://www.apache.org/licenses/LICENSE-2.0 // // Unless required by applicable law or agreed to in writing, software // distributed under the License is distributed on an "AS IS" BASIS, // WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. // See the License for the specific language governing permissions and // limitations under the License. // package org.pathvisio.wikipathways.client; import java.util.ArrayList; import java.util.Collections; import java.util.Comparator; import java.util.HashMap; import java.util.HashSet; import java.util.List; import java.util.Map; import java.util.Set; import com.google.gwt.user.client.Window; import com.google.gwt.user.client.rpc.AsyncCallback; import com.google.gwt.user.client.ui.ChangeListener; import com.google.gwt.user.client.ui.CheckBox; import com.google.gwt.user.client.ui.ClickListener; import com.google.gwt.user.client.ui.FlexTable; import com.google.gwt.user.client.ui.HorizontalPanel; import com.google.gwt.user.client.ui.Hyperlink; import com.google.gwt.user.client.ui.Label; import com.google.gwt.user.client.ui.ListBox; import com.google.gwt.user.client.ui.Panel; import com.google.gwt.user.client.ui.VerticalPanel; import com.google.gwt.user.client.ui.Widget; public class FactorPanel extends StatePanel { String pathway; ListBox factorBox; FlexTable conditionPanel; Panel centerPanel; Map<String, FactorInfo> factors = new HashMap<String, FactorInfo>(); Map<String, Set<String>> selectedFactors = new HashMap<String, Set<String>>(); State currentState; public FactorPanel(AtlasMapper main) { super("Select conditions", main); centerPanel = new VerticalPanel(); add(centerPanel, CENTER); HorizontalPanel factorPanel = new HorizontalPanel(); factorPanel.add(new Label("Condition type:")); factorBox = new ListBox(); factorBox.addChangeListener(new ChangeListener() { public void onChange(Widget sender) { factorChanged(); } }); factorPanel.add(factorBox); centerPanel.add(factorPanel); conditionPanel = new FlexTable(); centerPanel.add(conditionPanel); } public State getState(boolean nextPanel) { State state = new State(); if (pathway != null) { state.setValue(State.KEY_PATHWAY, pathway); } String factorType = factorBox.getItemText(factorBox.getSelectedIndex()); if (factorType != null) { state.setValue(State.KEY_FACTOR_TYPE, factorType); Set<String> selected = selectedFactors.get(factorType); if (selected != null) { String factorValue = ""; for (String s : selected) { factorValue += s + SEP_FACTOR; } if (factorValue.length() > SEP_FACTOR.length()) { state.setValue(State.KEY_FACTOR_VALUES, factorValue.substring(0, factorValue.length() - SEP_FACTOR.length())); } } } if (nextPanel) { state.setValue(State.KEY_PANEL, State.PANEL_IMAGE); } else { state.setValue(State.KEY_PANEL, State.PANEL_FACTOR); } return state; } public void setState(State state) { currentState = state; pathway = state.getValue(State.KEY_PATHWAY); queryFactors(); } void factorChecked(CheckBox box) { String factorType = factorBox.getItemText(factorBox.getSelectedIndex()); Set<String> selected = selectedFactors.get(factorType); if (box.isChecked()) { if (selected == null) { selectedFactors.put(factorType, selected = new HashSet<String>()); } selected.add(box.getText()); } else { if (selected != null) { selected.remove(box.getText()); } } } void factorChanged() { conditionPanel.clear(); String name = factorBox.getItemText(factorBox.getSelectedIndex()); Set<String> selected = selectedFactors.get(name); if (name != null && factors.containsKey(name)) { String[] values = factors.get(name).values; int row = 0; int col = 0; for (String v : values) { if (col == NR_COL) { row++; col = 0; } final CheckBox check = new CheckBox(v); check.addClickListener(new ClickListener() { public void onClick(Widget sender) { factorChecked(check); } }); conditionPanel.setWidget(row, col++, check); check.setChecked(selected != null && selected.contains(v)); } } } void refreshFactors() { factorBox.clear(); conditionPanel.clear(); //Create a checkbox for each factor int selected = 0; if (factors != null && factors.size() > 0) { List<FactorInfo> flist = new ArrayList<FactorInfo>(factors.values()); Collections.sort(flist, new Comparator<FactorInfo>() { public int compare(FactorInfo o1, FactorInfo o2) { return o1.name.compareTo(o2.name); } }); for (FactorInfo fi : flist) { factorBox.addItem(fi.name); } String factorType = currentState.getValue(State.KEY_FACTOR_TYPE); if (factorType != null) { selected = flist.indexOf(factors.get(factorType)); } factorBox.setSelectedIndex(selected < 0 ? 0 : selected); factorChanged(); } else { //No data found for this pathway centerPanel.clear(); centerPanel.add(new Label("No data found on Atlas for this pathway.")); State changeState = new State(); changeState.setValue(State.KEY_PANEL, State.PANEL_PATHWAY); centerPanel.add(new Hyperlink("Select a different pathway", changeState.toString())); } refreshButton(); } protected boolean hasNext() { return factors != null && factors.size() > 0; } void queryFactors() { AsyncCallback<FactorInfo[]> callback = new AsyncCallback<FactorInfo[]>() { public void onFailure(Throwable caught) { caught.printStackTrace(); Window.alert("Unable to download experiment\n" + caught.getMessage()); } public void onSuccess(FactorInfo[] result) { factors.clear(); //Create a map of all factors for (FactorInfo fi : result) { factors.put(fi.name, fi); } //Find the selected factors selectedFactors.clear(); if (currentState != null) { String factorType = currentState.getValue(State.KEY_FACTOR_TYPE); String valueString = currentState.getValue(State.KEY_FACTOR_VALUES); FactorInfo factorInfo = factors.get(factorType); if (valueString != null && factorInfo != null) { Set<String> existValues = new HashSet<String>(); for (String v : factorInfo.values) existValues.add(v); String[] values = valueString.split(SEP_FACTOR); Set<String> selected = new HashSet<String>(); for (String v : values) { if (existValues.contains(v)) selected.add(v); } if (selected.size() > 0) { selectedFactors.put(factorType, selected); } } } refreshFactors(); main.stopProgress(FactorPanel.this); } }; main.startProgress(); main.getService().getFactors(pathway, callback); } static final int NR_COL = 3; static final String SEP_FACTOR = ";"; }