Java tutorial
/** * The software subject to this notice and license includes both human readable * source code form and machine readable, binary, object code form. The caIntegrator2 * Software was developed in conjunction with the National Cancer Institute * (NCI) by NCI employees, 5AM Solutions, Inc. (5AM), ScenPro, Inc. (ScenPro) * and Science Applications International Corporation (SAIC). To the extent * government employees are authors, any rights in such works shall be subject * to Title 17 of the United States Code, section 105. * * This caIntegrator2 Software License (the License) is between NCI and You. You (or * Your) shall mean a person or an entity, and all other entities that control, * are controlled by, or are under common control with the entity. Control for * purposes of this definition means (i) the direct or indirect power to cause * the direction or management of such entity, whether by contract or otherwise, * or (ii) ownership of fifty percent (50%) or more of the outstanding shares, * or (iii) beneficial ownership of such entity. * * This License is granted provided that You agree to the conditions described * below. NCI grants You a non-exclusive, worldwide, perpetual, fully-paid-up, * no-charge, irrevocable, transferable and royalty-free right and license in * its rights in the caIntegrator2 Software to (i) use, install, access, operate, * execute, copy, modify, translate, market, publicly display, publicly perform, * and prepare derivative works of the caIntegrator2 Software; (ii) distribute and * have distributed to and by third parties the caIntegrator2 Software and any * modifications and derivative works thereof; and (iii) sublicense the * foregoing rights set out in (i) and (ii) to third parties, including the * right to license such rights to further third parties. For sake of clarity, * and not by way of limitation, NCI shall have no right of accounting or right * of payment from You or Your sub-licensees for the rights granted under this * License. This License is granted at no charge to You. * * Your redistributions of the source code for the Software must retain the * above copyright notice, this list of conditions and the disclaimer and * limitation of liability of Article 6, below. Your redistributions in object * code form must reproduce the above copyright notice, this list of conditions * and the disclaimer of Article 6 in the documentation and/or other materials * provided with the distribution, if any. * * Your end-user documentation included with the redistribution, if any, must * include the following acknowledgment: This product includes software * developed by 5AM, ScenPro, SAIC and the National Cancer Institute. If You do * not include such end-user documentation, You shall include this acknowledgment * in the Software itself, wherever such third-party acknowledgments normally * appear. * * You may not use the names "The National Cancer Institute", "NCI", "ScenPro", * "SAIC" or "5AM" to endorse or promote products derived from this Software. * This License does not authorize You to use any trademarks, service marks, * trade names, logos or product names of either NCI, ScenPro, SAID or 5AM, * except as required to comply with the terms of this License. * * For sake of clarity, and not by way of limitation, You may incorporate this * Software into Your proprietary programs and into any third party proprietary * programs. However, if You incorporate the Software into third party * proprietary programs, You agree that You are solely responsible for obtaining * any permission from such third parties required to incorporate the Software * into such third party proprietary programs and for informing Your a * sub-licensees, including without limitation Your end-users, of their * obligation to secure any required permissions from such third parties before * incorporating the Software into such third party proprietary software * programs. In the event that You fail to obtain such permissions, You agree * to indemnify NCI for any claims against NCI by such third parties, except to * the extent prohibited by law, resulting from Your failure to obtain such * permissions. * * For sake of clarity, and not by way of limitation, You may add Your own * copyright statement to Your modifications and to the derivative works, and * You may provide additional or different license terms and conditions in Your * sublicenses of modifications of the Software, or any derivative works of the * Software as a whole, provided Your use, reproduction, and distribution of the * Work otherwise complies with the conditions stated in this License. * * THIS SOFTWARE IS PROVIDED "AS IS," AND ANY EXPRESSED OR IMPLIED WARRANTIES, * (INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY, * NON-INFRINGEMENT AND FITNESS FOR A PARTICULAR PURPOSE) ARE DISCLAIMED. IN NO * EVENT SHALL THE NATIONAL CANCER INSTITUTE, 5AM SOLUTIONS, INC., SCENPRO, INC., * SCIENCE APPLICATIONS INTERNATIONAL CORPORATION OR THEIR * AFFILIATES BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, * EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, * PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; * OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, * WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR * OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF * ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. */ package com.fiveamsolutions.nci.commons.kmplot; import java.awt.image.BufferedImage; import java.io.IOException; import java.io.OutputStream; import java.util.HashMap; import java.util.Map; import org.apache.log4j.Logger; import org.jfree.chart.ChartUtilities; import org.jfree.chart.JFreeChart; /** * Implementation based on JFreeChart. */ public class KMPlotImpl implements KMPlot { private static final int DEFAULT_WIDTH = 800; private static final int DEFAULT_HEIGHT = 500; private static final Logger LOGGER = Logger.getLogger(KMPlotImpl.class); private JFreeChart plotChart; private final Map<SubjectGroup, Map<SubjectGroup, Double>> groupToGroupPValueMap = new HashMap<SubjectGroup, Map<SubjectGroup, Double>>(); private KMPlotConfiguration configuration; /** * {@inheritDoc} */ public void writePlotImage(OutputStream out) { BufferedImage bufferedImage = getPlotChart().createBufferedImage(DEFAULT_WIDTH, DEFAULT_HEIGHT); try { ChartUtilities.writeBufferedImageAsPNG(out, bufferedImage); } catch (IOException e) { LOGGER.warn("Couldn't write KMPlot image", e); } } JFreeChart getPlotChart() { return plotChart; } void setPlotChart(JFreeChart plotChart) { this.plotChart = plotChart; } void setPValue(SubjectGroup group1, SubjectGroup group2, Double pValue) { getGroupPValueMap(group1).put(group2, pValue); } private Map<SubjectGroup, Double> getGroupPValueMap(SubjectGroup group) { Map<SubjectGroup, Double> groupPValueMap = groupToGroupPValueMap.get(group); if (groupPValueMap == null) { groupPValueMap = new HashMap<SubjectGroup, Double>(); groupToGroupPValueMap.put(group, groupPValueMap); } return groupPValueMap; } /** * {@inheritDoc} */ public Double getPValue(SubjectGroup group1, SubjectGroup group2) { if (group1.equals(group2)) { throw new IllegalArgumentException("Groups must be different"); } return getGroupPValueMap(group1).get(group2); } /** * {@inheritDoc} */ public KMPlotConfiguration getConfiguration() { return configuration; } /** * @param configuration the configuration to set */ public void setConfiguration(KMPlotConfiguration configuration) { this.configuration = configuration; } }