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Posted to commits@taverna.apache.org by st...@apache.org on 2015/02/17 12:46:40 UTC
[13/50] [abbrv] incubator-taverna-plugin-bioinformatics git commit:
taverna-biomart-martservice/
http://git-wip-us.apache.org/repos/asf/incubator-taverna-plugin-bioinformatics/blob/9e08cac0/src/main/resources/org/biomart/martservice/config/ui/gene_schematic_cdna.gif
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http://git-wip-us.apache.org/repos/asf/incubator-taverna-plugin-bioinformatics/blob/9e08cac0/src/test/java/org/biomart/martservice/MartDatasetTest.java
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diff --git a/src/test/java/org/biomart/martservice/MartDatasetTest.java b/src/test/java/org/biomart/martservice/MartDatasetTest.java
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-/*
- * Copyright (C) 2003 The University of Manchester
- *
- * Modifications to the initial code base are copyright of their
- * respective authors, or their employers as appropriate. Authorship
- * of the modifications may be determined from the ChangeLog placed at
- * the end of this file.
- *
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU Lesser General Public License
- * as published by the Free Software Foundation; either version 2.1 of
- * the License, or (at your option) any later version.
- *
- * This program is distributed in the hope that it will be useful, but
- * WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- * Lesser General Public License for more details.
- *
- * You should have received a copy of the GNU Lesser General Public
- * License along with this program; if not, write to the Free Software
- * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307
- * USA.
- *
- ****************************************************************
- * Source code information
- * -----------------------
- * Filename $RCSfile: MartDatasetTest.java,v $
- * Revision $Revision: 1.1 $
- * Release status $State: Exp $
- * Last modified on $Date: 2007/01/31 14:12:14 $
- * by $Author: davidwithers $
- * Created on 4 Aug 2006
- *****************************************************************/
-package org.biomart.martservice;
-
-import junit.framework.TestCase;
-
-/**
- *
- * @author David Withers
- */
-public class MartDatasetTest extends TestCase {
-
- private String displayName;
-
- private String name;
-
- private String type;
-
- private int initialBatchSize;
-
- private int maximumBatchSize;
-
- private boolean visible;
-
- private String interfaceValue;
-
- private String modified;
-
- private MartURLLocation martUrlLocation;
-
- private MartDataset martDataset;
-
- /*
- * (non-Javadoc)
- *
- * @see junit.framework.TestCase#setUp()
- */
- protected void setUp() throws Exception {
- super.setUp();
- displayName = "dataset-display-name";
- name = "dataset-name";
- type = "type";
- initialBatchSize = 1;
- maximumBatchSize = 2;
- visible = true;
- interfaceValue = "interface";
- modified = "modified";
- martUrlLocation = new MartURLLocation();
- martUrlLocation.setDefault(true);
- martUrlLocation.setDisplayName("location-display-name");
- martUrlLocation.setHost("host");
- martUrlLocation.setName("location-name");
- martUrlLocation.setPort(42);
- martUrlLocation.setServerVirtualSchema("server-virtual-schema");
- martUrlLocation.setVirtualSchema("virtual-schema");
- martUrlLocation.setVisible(false);
- martDataset = new MartDataset();
- martDataset.setDisplayName(displayName);
- martDataset.setInitialBatchSize(initialBatchSize);
- martDataset.setMartURLLocation(martUrlLocation);
- martDataset.setMaximumBatchSize(maximumBatchSize);
- martDataset.setName(name);
- martDataset.setType(type);
- martDataset.setVisible(visible);
- martDataset.setInterface(interfaceValue);
- martDataset.setModified(modified);
- }
-
- /**
- * Test method for {@link org.biomart.martservice.MartDataset#hashCode()}.
- */
- public void testHashCode() {
- assertEquals(martDataset.hashCode(), martDataset.hashCode());
- }
-
- /**
- * Test method for
- * {@link org.biomart.martservice.MartDataset#getDisplayName()}.
- */
- public void testGetDisplayName() {
- assertEquals(martDataset.getDisplayName(), displayName);
- }
-
- /**
- * Test method for
- * {@link org.biomart.martservice.MartDataset#setDisplayName(java.lang.String)}.
- */
- public void testSetDisplayName() {
- martDataset.setDisplayName("new" + displayName);
- assertEquals(martDataset.getDisplayName(), "new" + displayName);
- martDataset.setDisplayName(null);
- assertNull(martDataset.getDisplayName());
- }
-
- /**
- * Test method for
- * {@link org.biomart.martservice.MartDataset#getInitialBatchSize()}.
- */
- public void testGetInitialBatchSize() {
- assertEquals(martDataset.getInitialBatchSize(), initialBatchSize);
- }
-
- /**
- * Test method for
- * {@link org.biomart.martservice.MartDataset#setInitialBatchSize(long)}.
- */
- public void testSetInitialBatchSize() {
- martDataset.setInitialBatchSize(1 + initialBatchSize);
- assertEquals(martDataset.getInitialBatchSize(), 1 + initialBatchSize);
- }
-
- /**
- * Test method for
- * {@link org.biomart.martservice.MartDataset#getMaximumBatchSize()}.
- */
- public void testGetMaximumBatchSize() {
- assertEquals(martDataset.getMaximumBatchSize(), maximumBatchSize);
- }
-
- /**
- * Test method for
- * {@link org.biomart.martservice.MartDataset#setMaximumBatchSize(long)}.
- */
- public void testSetMaximumBatchSize() {
- martDataset.setMaximumBatchSize(1 + maximumBatchSize);
- assertEquals(martDataset.getMaximumBatchSize(), 1 + maximumBatchSize);
- }
-
- /**
- * Test method for {@link org.biomart.martservice.MartDataset#getName()}.
- */
- public void testGetName() {
- assertEquals(martDataset.getName(), name);
- }
-
- /**
- * Test method for
- * {@link org.biomart.martservice.MartDataset#setName(java.lang.String)}.
- */
- public void testSetName() {
- martDataset.setName("new" + name);
- assertEquals(martDataset.getName(), "new" + name);
- martDataset.setName(null);
- assertNull(martDataset.getName());
- }
-
- /**
- * Test method for {@link org.biomart.martservice.MartDataset#getType()}.
- */
- public void testGetType() {
- assertEquals(martDataset.getType(), type);
- }
-
- /**
- * Test method for
- * {@link org.biomart.martservice.MartDataset#setType(java.lang.String)}.
- */
- public void testSetType() {
- martDataset.setType("new" + type);
- assertEquals(martDataset.getType(), "new" + type);
- martDataset.setType(null);
- assertNull(martDataset.getType());
- }
-
- /**
- * Test method for {@link org.biomart.martservice.MartDataset#isVisible()}.
- */
- public void testIsVisible() {
- assertEquals(martDataset.isVisible(), visible);
- }
-
- /**
- * Test method for
- * {@link org.biomart.martservice.MartDataset#setVisible(boolean)}.
- */
- public void testSetVisible() {
- martDataset.setVisible(!visible);
- assertEquals(martDataset.isVisible(), !visible);
- }
-
- /**
- * Test method for {@link org.biomart.martservice.MartDataset#getInterface()}.
- */
- public void testGetInterface() {
- assertEquals(martDataset.getInterface(), interfaceValue);
- }
-
- /**
- * Test method for
- * {@link org.biomart.martservice.MartDataset#setInterface(java.lang.String)}.
- */
- public void testSetInterface() {
- martDataset.setInterface("new" + interfaceValue);
- assertEquals(martDataset.getInterface(), "new" + interfaceValue);
- martDataset.setInterface(null);
- assertNull(martDataset.getInterface());
- }
-
- /**
- * Test method for {@link org.biomart.martservice.MartDataset#getModified()}.
- */
- public void testGetModified() {
- assertEquals(martDataset.getModified(), modified);
- }
-
- /**
- * Test method for
- * {@link org.biomart.martservice.MartDataset#setModified(java.lang.String)}.
- */
- public void testSetModified() {
- martDataset.setModified("new" + modified);
- assertEquals(martDataset.getModified(), "new" + modified);
- martDataset.setModified(null);
- assertNull(martDataset.getModified());
- }
-
- /**
- * Test method for
- * {@link org.biomart.martservice.MartDataset#getMartURLLocation()}.
- */
- public void testGetMartURLLocation() {
- assertEquals(martDataset.getMartURLLocation(), martUrlLocation);
- }
-
- /**
- * Test method for
- * {@link org.biomart.martservice.MartDataset#setMartURLLocation(org.biomart.martservice.MartURLLocation)}.
- */
- public void testSetMartURLLocation() {
- martUrlLocation = new MartURLLocation();
- martDataset.setMartURLLocation(martUrlLocation);
- assertEquals(martDataset.getMartURLLocation(), martUrlLocation);
- martDataset.setMartURLLocation(null);
- assertNull(martDataset.getMartURLLocation());
- }
-
- /**
- * Test method for
- * {@link org.biomart.martservice.MartDataset#getVirtualSchema()}.
- */
- public void testGetVirtualSchema() {
- assertEquals(martDataset.getVirtualSchema(), martDataset
- .getMartURLLocation().getVirtualSchema());
- martDataset.setMartURLLocation(null);
- assertNull(martDataset.getVirtualSchema());
- }
-
- /**
- * Test method for
- * {@link org.biomart.martservice.MartDataset#getQualifiedName()}.
- */
- public void testGetQualifiedName() {
- assertEquals(martDataset.getQualifiedName(), martDataset
- .getVirtualSchema()
- + "." + name);
- martDataset.setMartURLLocation(null);
- assertEquals(martDataset.getQualifiedName(), name);
- }
-
- /**
- * Test method for {@link org.biomart.martservice.MartDataset#toString()}.
- */
- public void testToString() {
- assertEquals(martDataset.toString(), martDataset.getDisplayName());
- }
-
- /**
- * Test method for
- * {@link org.biomart.martservice.MartDataset#equals(java.lang.Object)}.
- */
- public void testEqualsObject() {
- MartDataset martDataset2 = new MartDataset();
- martDataset2.setDisplayName(displayName);
- martDataset2.setInitialBatchSize(initialBatchSize);
- martDataset2.setMartURLLocation(martUrlLocation);
- martDataset2.setMaximumBatchSize(maximumBatchSize);
- martDataset2.setName(name);
- martDataset2.setType(type);
- martDataset2.setVisible(visible);
-
- assertTrue(martDataset.equals(martDataset));
- assertTrue(martDataset.equals(martDataset2));
- assertTrue(martDataset2.equals(martDataset));
- assertFalse(martDataset.equals(null));
- assertFalse(martDataset.equals(new Object()));
- assertFalse(martDataset.equals(new MartRegistry()));
- martDataset2.setName("new" + name);
- assertFalse(martDataset.equals(martDataset2));
- assertFalse(martDataset2.equals(martDataset));
- }
-
- /**
- * Test method for
- * {@link org.biomart.martservice.MartDataset#getDisplayComparator()}.
- */
- public void testGetDisplayComparator() {
- MartDataset martDataset2 = new MartDataset();
- martDataset2.setDisplayName(displayName);
- assertEquals(MartDataset.getDisplayComparator().compare(martDataset, martDataset2), 0);
- martDataset2.setDisplayName("new" + displayName);
- assertTrue(MartDataset.getDisplayComparator().compare(martDataset, martDataset2) != 0);
- }
-
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-plugin-bioinformatics/blob/9e08cac0/src/test/java/org/biomart/martservice/MartRegistryTest.java
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diff --git a/src/test/java/org/biomart/martservice/MartRegistryTest.java b/src/test/java/org/biomart/martservice/MartRegistryTest.java
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-/*
- * Copyright (C) 2003 The University of Manchester
- *
- * Modifications to the initial code base are copyright of their
- * respective authors, or their employers as appropriate. Authorship
- * of the modifications may be determined from the ChangeLog placed at
- * the end of this file.
- *
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU Lesser General Public License
- * as published by the Free Software Foundation; either version 2.1 of
- * the License, or (at your option) any later version.
- *
- * This program is distributed in the hope that it will be useful, but
- * WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- * Lesser General Public License for more details.
- *
- * You should have received a copy of the GNU Lesser General Public
- * License along with this program; if not, write to the Free Software
- * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307
- * USA.
- *
- ****************************************************************
- * Source code information
- * -----------------------
- * Filename $RCSfile: MartRegistryTest.java,v $
- * Revision $Revision: 1.1 $
- * Release status $State: Exp $
- * Last modified on $Date: 2007/01/31 14:12:14 $
- * by $Author: davidwithers $
- * Created on 4 Aug 2006
- *****************************************************************/
-package org.biomart.martservice;
-
-import junit.framework.TestCase;
-
-/**
- *
- * @author David Withers
- */
-public class MartRegistryTest extends TestCase {
-
- private MartURLLocation martUrlLocation;
-
- private MartRegistry martRegistry;
-
- /* (non-Javadoc)
- * @see junit.framework.TestCase#setUp()
- */
- protected void setUp() throws Exception {
- super.setUp();
- martUrlLocation = new MartURLLocation();
- martUrlLocation.setDefault(true);
- martUrlLocation.setDisplayName("location-display-name");
- martUrlLocation.setHost("host");
- martUrlLocation.setName("location-name");
- martUrlLocation.setPort(42);
- martUrlLocation.setServerVirtualSchema("server-virtual-schema");
- martUrlLocation.setVirtualSchema("virtual-schema");
- martUrlLocation.setVisible(false);
- martRegistry = new MartRegistry();
- }
-
- /**
- * Test method for {@link org.biomart.martservice.MartRegistry#hashCode()}.
- */
- public void testHashCode() {
- MartRegistry martRegistry2 = new MartRegistry();
- martRegistry.addMartURLLocation(martUrlLocation);
- martRegistry2.addMartURLLocation(martUrlLocation);
- assertEquals(martRegistry.hashCode(), martRegistry.hashCode());
- assertEquals(martRegistry.hashCode(), martRegistry2.hashCode());
- }
-
- /**
- * Test method for {@link org.biomart.martservice.MartRegistry#getMartURLLocations()}.
- */
- public void testGetMartURLLocations() {
- assertEquals(martRegistry.getMartURLLocations().length, 0);
- martRegistry.addMartURLLocation(martUrlLocation);
- assertEquals(martRegistry.getMartURLLocations()[0], martUrlLocation);
- }
-
- /**
- * Test method for {@link org.biomart.martservice.MartRegistry#addMartURLLocation(org.biomart.martservice.MartURLLocation)}.
- */
- public void testAddMartURLLocation() {
- martRegistry.addMartURLLocation(martUrlLocation);
- MartURLLocation[] martURLLocations = martRegistry.getMartURLLocations();
- assertEquals(martURLLocations[martURLLocations.length - 1], martUrlLocation);
- }
-
- /**
- * Test method for {@link org.biomart.martservice.MartRegistry#equals(java.lang.Object)}.
- */
- public void testEqualsObject() {
- MartRegistry martRegistry2 = new MartRegistry();
- martRegistry.addMartURLLocation(martUrlLocation);
- martRegistry2.addMartURLLocation(martUrlLocation);
-
- assertTrue(martRegistry.equals(martRegistry));
- assertTrue(martRegistry.equals(martRegistry2));
- assertTrue(martRegistry2.equals(martRegistry));
- assertFalse(martRegistry.equals(null));
- assertFalse(martRegistry.equals(new Object()));
- assertFalse(martRegistry.equals(new MartRegistry()));
- martRegistry2.addMartURLLocation(martUrlLocation);
- assertFalse(martRegistry.equals(martRegistry2));
- assertFalse(martRegistry2.equals(martRegistry));
- }
-
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-plugin-bioinformatics/blob/9e08cac0/src/test/java/org/biomart/martservice/MartServiceUtilsTest.java
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diff --git a/src/test/java/org/biomart/martservice/MartServiceUtilsTest.java b/src/test/java/org/biomart/martservice/MartServiceUtilsTest.java
deleted file mode 100644
index d938440..0000000
--- a/src/test/java/org/biomart/martservice/MartServiceUtilsTest.java
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@@ -1,65 +0,0 @@
-/*
- * Copyright (C) 2003 The University of Manchester
- *
- * Modifications to the initial code base are copyright of their
- * respective authors, or their employers as appropriate. Authorship
- * of the modifications may be determined from the ChangeLog placed at
- * the end of this file.
- *
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU Lesser General Public License
- * as published by the Free Software Foundation; either version 2.1 of
- * the License, or (at your option) any later version.
- *
- * This program is distributed in the hope that it will be useful, but
- * WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- * Lesser General Public License for more details.
- *
- * You should have received a copy of the GNU Lesser General Public
- * License along with this program; if not, write to the Free Software
- * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307
- * USA.
- *
- ****************************************************************
- * Source code information
- * -----------------------
- * Filename $RCSfile: MartServiceUtilsTest.java,v $
- * Revision $Revision: 1.1 $
- * Release status $State: Exp $
- * Last modified on $Date: 2007/02/22 18:31:56 $
- * by $Author: davidwithers $
- * Created on 22 Feb 2007
- *****************************************************************/
-package org.biomart.martservice;
-
-import static org.junit.Assert.*;
-
-import org.junit.Test;
-
-/**
- *
- * @author David Withers
- */
-public class MartServiceUtilsTest {
-
- /**
- * Test method for {@link org.biomart.martservice.MartServiceUtils#isProxyHost(java.lang.String)}.
- */
- @Test
- public void testIsProxyHost() {
- System.setProperty("http.nonProxyHosts", "localhost|127.0.0.1|*.mydomain.com|192.168.1.*");
- assertFalse(MartServiceUtils.isProxyHost("http://localhost/"));
- assertFalse(MartServiceUtils.isProxyHost("http://localhost:8080/"));
- assertFalse(MartServiceUtils.isProxyHost("http://127.0.0.1/"));
- assertFalse(MartServiceUtils.isProxyHost("http://www.mydomain.com/"));
- assertFalse(MartServiceUtils.isProxyHost("http://www.sub.mydomain.com/"));
- assertFalse(MartServiceUtils.isProxyHost("http://192.168.1.1/"));
- assertFalse(MartServiceUtils.isProxyHost("http://192.168.1.2/"));
- assertTrue(MartServiceUtils.isProxyHost("http://www.mydomain.co.uk/"));
- assertTrue(MartServiceUtils.isProxyHost("http://192.168.2.1/"));
- assertTrue(MartServiceUtils.isProxyHost("http://127.0.0.2/"));
- assertTrue(MartServiceUtils.isProxyHost("http://nonlocalhost/"));
- }
-
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-plugin-bioinformatics/blob/9e08cac0/src/test/java/org/biomart/martservice/MartServiceXMLHandlerTest.java
----------------------------------------------------------------------
diff --git a/src/test/java/org/biomart/martservice/MartServiceXMLHandlerTest.java b/src/test/java/org/biomart/martservice/MartServiceXMLHandlerTest.java
deleted file mode 100644
index 4c4dded..0000000
--- a/src/test/java/org/biomart/martservice/MartServiceXMLHandlerTest.java
+++ /dev/null
@@ -1,218 +0,0 @@
-/*
- * Copyright (C) 2003 The University of Manchester
- *
- * Modifications to the initial code base are copyright of their
- * respective authors, or their employers as appropriate. Authorship
- * of the modifications may be determined from the ChangeLog placed at
- * the end of this file.
- *
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU Lesser General Public License
- * as published by the Free Software Foundation; either version 2.1 of
- * the License, or (at your option) any later version.
- *
- * This program is distributed in the hope that it will be useful, but
- * WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- * Lesser General Public License for more details.
- *
- * You should have received a copy of the GNU Lesser General Public
- * License along with this program; if not, write to the Free Software
- * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307
- * USA.
- *
- ****************************************************************
- * Source code information
- * -----------------------
- * Filename $RCSfile: MartServiceXMLHandlerTest.java,v $
- * Revision $Revision: 1.2 $
- * Release status $State: Exp $
- * Last modified on $Date: 2007/10/04 14:16:00 $
- * by $Author: davidwithers $
- * Created on 02-Jun-2006
- *****************************************************************/
-package org.biomart.martservice;
-
-import java.io.IOException;
-import java.io.StringReader;
-
-import junit.framework.TestCase;
-import org.jdom.Element;
-import org.jdom.JDOMException;
-import org.jdom.Namespace;
-import org.jdom.input.SAXBuilder;
-import org.jdom.output.XMLOutputter;
-
-/**
- *
- * @author David Withers
- */
-public class MartServiceXMLHandlerTest extends TestCase {
- private XMLOutputter xmlOutputter;
-
- private SAXBuilder saxBuilder;
-
- private Namespace namespace;
-
- private MartService martService;
-
- private String martServiceXML;
-
- private MartURLLocation martUrlLocation;
-
- private String martUrlLocationXML;
-
- private MartDataset martDataset;
-
- private String martDatasetXML;
-
- private MartRegistry martRegistry;
-
- private String martRegistryXML;
-
- private String martRegistryXML2;
-
- /*
- * @see TestCase#setUp()
- */
- protected void setUp() throws Exception {
- super.setUp();
- xmlOutputter = new XMLOutputter();
- saxBuilder = new SAXBuilder();
- namespace = Namespace.getNamespace("test-namespace");
- martService = MartService.getMartService("url-location");
- martServiceXML = "<MartService xmlns=\"test-namespace\" location=\"url-location\" />";
- martUrlLocation = new MartURLLocation();
- martUrlLocation.setDefault(true);
- martUrlLocation.setDisplayName("location-display-name");
- martUrlLocation.setHost("host");
- martUrlLocation.setName("location-name");
- martUrlLocation.setPort(42);
- martUrlLocation.setServerVirtualSchema("server-virtual-schema");
- martUrlLocation.setVirtualSchema("virtual-schema");
- martUrlLocation.setVisible(false);
- martUrlLocation.setRedirect(true);
- martUrlLocationXML = "<MartURLLocation xmlns=\"test-namespace\" default=\"1\" displayName=\"location-display-name\" host=\"host\" name=\"location-name\" port=\"42\" serverVirtualSchema=\"server-virtual-schema\" virtualSchema=\"virtual-schema\" visible=\"0\" redirect=\"1\" />";
- martDataset = new MartDataset();
- martDataset.setDisplayName("dataset-display-name");
- martDataset.setInitialBatchSize(1);
- martDataset.setMartURLLocation(martUrlLocation);
- martDataset.setMaximumBatchSize(2);
- martDataset.setName("dataset-name");
- martDataset.setType("type");
- martDataset.setVisible(true);
- martDataset.setInterface("interface");
- martDataset.setModified("modified");
- martDatasetXML = "<MartDataset xmlns=\"test-namespace\" displayName=\"dataset-display-name\" name=\"dataset-name\" type=\"type\" initialBatchSize=\"1\" maximumBatchSize=\"2\" visible=\"true\" interface=\"interface\" modified=\"modified\"><MartURLLocation default=\"1\" displayName=\"location-display-name\" host=\"host\" name=\"location-name\" port=\"42\" serverVirtualSchema=\"server-virtual-schema\" virtualSchema=\"virtual-schema\" visible=\"0\" redirect=\"1\" /></MartDataset>";
- martRegistry = new MartRegistry();
- martRegistry.addMartURLLocation(martUrlLocation);
- martRegistryXML = "<MartRegistry xmlns=\"test-namespace\" ><virtualSchema xmlns=\"test-namespace\" name=\"virtual-schema\" visible=\"0\"><MartURLLocation xmlns=\"test-namespace\" default=\"1\" displayName=\"location-display-name\" host=\"host\" name=\"location-name\" port=\"42\" serverVirtualSchema=\"server-virtual-schema\" visible=\"0\" redirect=\"1\" /></virtualSchema></MartRegistry>";
- martRegistryXML2 = "<MartRegistry xmlns=\"test-namespace\" ><virtualSchema xmlns=\"test-namespace\" name=\"default\" visible=\"0\"><MartURLLocation xmlns=\"test-namespace\" default=\"1\" displayName=\"location-display-name\" host=\"host\" name=\"location-name\" port=\"42\" serverVirtualSchema=\"server-virtual-schema\" visible=\"0\" redirect=\"1\" /></virtualSchema></MartRegistry>";
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.MartServiceXMLHandler.martServiceToElement(MartService,
- * Namespace)'
- */
- public void testMartServiceToElement() {
- Element element = MartServiceXMLHandler.martServiceToElement(
- martService, namespace);
- assertEquals(xmlOutputter.outputString(element), martServiceXML);
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.MartServiceXMLHandler.elementToMartService(Element)'
- */
- public void testElementToMartService() throws JDOMException, IOException {
- Element element = saxBuilder.build(new StringReader(martServiceXML))
- .getRootElement();
- assertEquals(MartServiceXMLHandler.elementToMartService(element),
- martService);
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.MartServiceXMLHandler.datasetToElement(MartDataset,
- * Namespace)'
- */
- public void testDatasetToElement() {
- Element element = MartServiceXMLHandler.datasetToElement(martDataset,
- namespace);
- assertEquals(xmlOutputter.outputString(element), martDatasetXML);
-// System.out.println(new XMLOutputter().outputString(element));
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.MartServiceXMLHandler.elementToDataset(Element,
- * Namespace)'
- */
- public void testElementToDataset() throws JDOMException, IOException {
- Element element = saxBuilder.build(new StringReader(martDatasetXML))
- .getRootElement();
- assertEquals(
- MartServiceXMLHandler.elementToDataset(element, namespace),
- martDataset);
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.MartServiceXMLHandler.elementToRegistry(Element,
- * Namespace)'
- */
- public void testElementToRegistry() throws JDOMException, IOException {
- Element element = saxBuilder.build(new StringReader(martRegistryXML))
- .getRootElement();
- assertEquals(MartServiceXMLHandler
- .elementToRegistry(element, namespace), martRegistry);
-
- martUrlLocation.setVirtualSchema("default");
- element = saxBuilder.build(new StringReader(martRegistryXML2))
- .getRootElement();
- assertEquals(MartServiceXMLHandler
- .elementToRegistry(element, namespace), martRegistry);
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.MartServiceXMLHandler.locationToElement(MartURLLocation,
- * Namespace)'
- */
- public void testLocationToElement() {
- Element element = MartServiceXMLHandler.locationToElement(
- martUrlLocation, namespace);
- assertEquals(xmlOutputter.outputString(element), martUrlLocationXML);
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.MartServiceXMLHandler.elementToLocation(Element)'
- */
- public void testElementToLocation() throws JDOMException, IOException {
- Element element = saxBuilder
- .build(new StringReader(martUrlLocationXML)).getRootElement();
- assertEquals(MartServiceXMLHandler.elementToLocation(element),
- martUrlLocation);
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.MartServiceXMLHandler.elementToMartQuery(Element,
- * Namespace)'
- */
- public void testElementToMartQuery() {
-
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.MartServiceXMLHandler.martQueryToElement(MartQuery,
- * Namespace)'
- */
- public void testMartQueryToElement() {
-
- }
-
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-plugin-bioinformatics/blob/9e08cac0/src/test/java/org/biomart/martservice/MartURLLocationTest.java
----------------------------------------------------------------------
diff --git a/src/test/java/org/biomart/martservice/MartURLLocationTest.java b/src/test/java/org/biomart/martservice/MartURLLocationTest.java
deleted file mode 100644
index aa5ad8a..0000000
--- a/src/test/java/org/biomart/martservice/MartURLLocationTest.java
+++ /dev/null
@@ -1,255 +0,0 @@
-/*
- * Copyright (C) 2003 The University of Manchester
- *
- * Modifications to the initial code base are copyright of their
- * respective authors, or their employers as appropriate. Authorship
- * of the modifications may be determined from the ChangeLog placed at
- * the end of this file.
- *
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU Lesser General Public License
- * as published by the Free Software Foundation; either version 2.1 of
- * the License, or (at your option) any later version.
- *
- * This program is distributed in the hope that it will be useful, but
- * WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- * Lesser General Public License for more details.
- *
- * You should have received a copy of the GNU Lesser General Public
- * License along with this program; if not, write to the Free Software
- * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307
- * USA.
- *
- ****************************************************************
- * Source code information
- * -----------------------
- * Filename $RCSfile: MartURLLocationTest.java,v $
- * Revision $Revision: 1.1 $
- * Release status $State: Exp $
- * Last modified on $Date: 2007/01/31 14:12:14 $
- * by $Author: davidwithers $
- * Created on 02-Jun-2006
- *****************************************************************/
-package org.biomart.martservice;
-
-import junit.framework.TestCase;
-
-/**
- *
- * @author David Withers
- */
-public class MartURLLocationTest extends TestCase {
- private MartURLLocation martURLLocation;
- /*
- * @see TestCase#setUp()
- */
- protected void setUp() throws Exception {
- super.setUp();
- martURLLocation = new MartURLLocation();
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.isDefault()'
- */
- public void testIsDefault() {
- assertFalse(martURLLocation.isDefault());
- martURLLocation.setDefault(true);
- assertTrue(martURLLocation.isDefault());
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.setDefault(boolean)'
- */
- public void testSetDefault() {
- martURLLocation.setDefault(true);
- assertTrue(martURLLocation.isDefault());
- martURLLocation.setDefault(false);
- assertFalse(martURLLocation.isDefault());
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.getDisplayName()'
- */
- public void testGetDisplayName() {
- assertNull(martURLLocation.getDisplayName());
- martURLLocation.setDisplayName("DisplayName");
- assertEquals(martURLLocation.getDisplayName(), "DisplayName");
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.setDisplayName(String)'
- */
- public void testSetDisplayName() {
- martURLLocation.setDisplayName("DisplayName");
- assertEquals(martURLLocation.getDisplayName(), "DisplayName");
- martURLLocation.setDisplayName(null);
- assertNull(martURLLocation.getDisplayName());
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.getHost()'
- */
- public void testGetHost() {
- assertNull(martURLLocation.getHost());
- martURLLocation.setHost("Host");
- assertEquals(martURLLocation.getHost(), "Host");
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.setHost(String)'
- */
- public void testSetHost() {
- martURLLocation.setHost("Host");
- assertEquals(martURLLocation.getHost(), "Host");
- martURLLocation.setHost(null);
- assertNull(martURLLocation.getHost());
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.getName()'
- */
- public void testGetName() {
- assertNull(martURLLocation.getName());
- martURLLocation.setName("Name");
- assertEquals(martURLLocation.getName(), "Name");
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.setName(String)'
- */
- public void testSetName() {
- martURLLocation.setName("Name");
- assertEquals(martURLLocation.getName(), "Name");
- martURLLocation.setName(null);
- assertNull(martURLLocation.getName());
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.getPort()'
- */
- public void testGetPort() {
- assertEquals(martURLLocation.getPort(), 0);
- martURLLocation.setPort(-1);
- assertEquals(martURLLocation.getPort(), -1);
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.setPort(int)'
- */
- public void testSetPort() {
- martURLLocation.setPort(-1);
- assertEquals(martURLLocation.getPort(), -1);
- martURLLocation.setPort(0);
- assertEquals(martURLLocation.getPort(), 0);
- martURLLocation.setPort(1);
- assertEquals(martURLLocation.getPort(), 1);
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.getServerVirtualSchema()'
- */
- public void testGetServerVirtualSchema() {
- assertNull(martURLLocation.getServerVirtualSchema());
- martURLLocation.setServerVirtualSchema("ServerVirtualSchema");
- assertEquals(martURLLocation.getServerVirtualSchema(), "ServerVirtualSchema");
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.setServerVirtualSchema(String)'
- */
- public void testSetServerVirtualSchema() {
- martURLLocation.setServerVirtualSchema("ServerVirtualSchema");
- assertEquals(martURLLocation.getServerVirtualSchema(), "ServerVirtualSchema");
- martURLLocation.setServerVirtualSchema(null);
- assertNull(martURLLocation.getServerVirtualSchema());
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.getVirtualSchema()'
- */
- public void testGetVirtualSchema() {
- assertNull(martURLLocation.getVirtualSchema());
- martURLLocation.setVirtualSchema("VirtualSchema");
- assertEquals(martURLLocation.getVirtualSchema(), "VirtualSchema");
-
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.setVirtualSchema(String)'
- */
- public void testSetVirtualSchema() {
- martURLLocation.setVirtualSchema("VirtualSchema");
- assertEquals(martURLLocation.getVirtualSchema(), "VirtualSchema");
- martURLLocation.setVirtualSchema(null);
- assertNull(martURLLocation.getVirtualSchema());
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.isVisible()'
- */
- public void testIsVisible() {
- assertFalse(martURLLocation.isVisible());
- martURLLocation.setVisible(true);
- assertTrue(martURLLocation.isVisible());
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.setVisible(boolean)'
- */
- public void testSetVisible() {
- martURLLocation.setVisible(true);
- assertTrue(martURLLocation.isVisible());
- martURLLocation.setVisible(false);
- assertFalse(martURLLocation.isVisible());
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.getType()'
- */
- public void testGetType() {
- assertEquals(martURLLocation.getType(), "URL");
- }
-
- /*
- * Test method for 'org.biomart.martservice.MartURLLocation.toString()'
- */
- public void testToString() {
- martURLLocation.setDisplayName("DisplayName");
- assertEquals(martURLLocation.toString(), "DisplayName");
- }
-
- public void testHashCode() {
- MartURLLocation martURLLocation2 = new MartURLLocation();
- assertEquals(martURLLocation.hashCode(), martURLLocation2.hashCode());
- martURLLocation.setDefault(true);
- martURLLocation2.setDefault(true);
- assertEquals(martURLLocation.hashCode(), martURLLocation2.hashCode());
- martURLLocation.setDisplayName("DisplayName");
- martURLLocation2.setDisplayName("DisplayName");
- assertEquals(martURLLocation.hashCode(), martURLLocation2.hashCode());
- martURLLocation.setHost("Host");
- martURLLocation2.setHost("Host");
- assertEquals(martURLLocation.hashCode(), martURLLocation2.hashCode());
- martURLLocation.setName("Name");
- martURLLocation2.setName("Name");
- assertEquals(martURLLocation.hashCode(), martURLLocation2.hashCode());
- martURLLocation.setPort(-1);
- martURLLocation2.setPort(-1);
- assertEquals(martURLLocation.hashCode(), martURLLocation2.hashCode());
- martURLLocation.setServerVirtualSchema("ServerVirtualSchema");
- martURLLocation2.setServerVirtualSchema("ServerVirtualSchema");
- assertEquals(martURLLocation.hashCode(), martURLLocation2.hashCode());
- martURLLocation.setVirtualSchema("VirtualSchema");
- martURLLocation2.setVirtualSchema("VirtualSchema");
- assertEquals(martURLLocation.hashCode(), martURLLocation2.hashCode());
- martURLLocation.setVisible(true);
- martURLLocation2.setVisible(true);
- assertEquals(martURLLocation.hashCode(), martURLLocation2.hashCode());
- martURLLocation.setVisible(true);
- martURLLocation2.setVisible(true);
- assertEquals(martURLLocation.hashCode(), martURLLocation2.hashCode());
-
- }
-
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-plugin-bioinformatics/blob/9e08cac0/src/test/java/org/biomart/martservice/config/event/QueryComponentEventTest.java
----------------------------------------------------------------------
diff --git a/src/test/java/org/biomart/martservice/config/event/QueryComponentEventTest.java b/src/test/java/org/biomart/martservice/config/event/QueryComponentEventTest.java
deleted file mode 100644
index c22d8e2..0000000
--- a/src/test/java/org/biomart/martservice/config/event/QueryComponentEventTest.java
+++ /dev/null
@@ -1,131 +0,0 @@
-/*
- * Copyright (C) 2003 The University of Manchester
- *
- * Modifications to the initial code base are copyright of their
- * respective authors, or their employers as appropriate. Authorship
- * of the modifications may be determined from the ChangeLog placed at
- * the end of this file.
- *
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU Lesser General Public License
- * as published by the Free Software Foundation; either version 2.1 of
- * the License, or (at your option) any later version.
- *
- * This program is distributed in the hope that it will be useful, but
- * WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- * Lesser General Public License for more details.
- *
- * You should have received a copy of the GNU Lesser General Public
- * License along with this program; if not, write to the Free Software
- * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307
- * USA.
- *
- ****************************************************************
- * Source code information
- * -----------------------
- * Filename $RCSfile: QueryComponentEventTest.java,v $
- * Revision $Revision: 1.1 $
- * Release status $State: Exp $
- * Last modified on $Date: 2007/01/31 14:12:15 $
- * by $Author: davidwithers $
- * Created on 06-Jun-2006
- *****************************************************************/
-package org.biomart.martservice.config.event;
-
-import org.biomart.martservice.MartDataset;
-
-import junit.framework.TestCase;
-
-/**
- *
- * @author David Withers
- */
-public class QueryComponentEventTest extends TestCase {
- private QueryComponentEvent queryComponentEvent;
-
- private QueryComponentEvent nullQueryComponentEvent;
-
- private Object source;
-
- private String name;
-
- private MartDataset martDataset;
-
- private String value;
-
- /*
- * @see TestCase#setUp()
- */
- protected void setUp() throws Exception {
- super.setUp();
- source = "source";
- name = "name";
- martDataset = new MartDataset();
- value = "value";
- queryComponentEvent = new QueryComponentEvent(source, name, martDataset, value);
- nullQueryComponentEvent = new QueryComponentEvent(source, null, null, null);
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.config.event.QueryComponentEvent.QueryComponentEvent(Object,
- * String, MartDataset)'
- */
- public void testQueryComponentEventObjectStringMartDataset() {
- QueryComponentEvent event = new QueryComponentEvent(source, name, martDataset);
- assertSame(event.getSource(), source);
- assertEquals(event.getName(), name);
- assertEquals(event.getDataset(), martDataset);
- assertNull(event.getValue());
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.config.event.QueryComponentEvent.QueryComponentEvent(Object,
- * String, MartDataset, String)'
- */
- public void testQueryComponentEventObjectStringMartDatasetString() {
- QueryComponentEvent event = new QueryComponentEvent(source, name, martDataset, value);
- assertSame(event.getSource(), source);
- assertEquals(event.getName(), name);
- assertEquals(event.getDataset(), martDataset);
- assertEquals(event.getValue(), value);
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.config.event.QueryComponentEvent.getName()'
- */
- public void testGetName() {
- assertEquals(queryComponentEvent.getName(), name);
- assertNull(nullQueryComponentEvent.getName());
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.config.event.QueryComponentEvent.getDataset()'
- */
- public void testGetDataset() {
- assertEquals(queryComponentEvent.getDataset(), martDataset);
- assertNull(nullQueryComponentEvent.getDataset());
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.config.event.QueryComponentEvent.getValue()'
- */
- public void testGetValue() {
- assertEquals(queryComponentEvent.getValue(), value);
- assertNull(nullQueryComponentEvent.getValue());
- }
-
- /*
- * Test method for 'java.util.EventObject.getSource()'
- */
- public void testGetSource() {
- assertSame(queryComponentEvent.getSource(), source);
- assertSame(nullQueryComponentEvent.getSource(), source);
- }
-
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-plugin-bioinformatics/blob/9e08cac0/src/test/java/org/biomart/martservice/config/ui/MartServiceIconsTest.java
----------------------------------------------------------------------
diff --git a/src/test/java/org/biomart/martservice/config/ui/MartServiceIconsTest.java b/src/test/java/org/biomart/martservice/config/ui/MartServiceIconsTest.java
deleted file mode 100644
index 2236f37..0000000
--- a/src/test/java/org/biomart/martservice/config/ui/MartServiceIconsTest.java
+++ /dev/null
@@ -1,77 +0,0 @@
-/*
- * Copyright (C) 2003 The University of Manchester
- *
- * Modifications to the initial code base are copyright of their
- * respective authors, or their employers as appropriate. Authorship
- * of the modifications may be determined from the ChangeLog placed at
- * the end of this file.
- *
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU Lesser General Public License
- * as published by the Free Software Foundation; either version 2.1 of
- * the License, or (at your option) any later version.
- *
- * This program is distributed in the hope that it will be useful, but
- * WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- * Lesser General Public License for more details.
- *
- * You should have received a copy of the GNU Lesser General Public
- * License along with this program; if not, write to the Free Software
- * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307
- * USA.
- *
- ****************************************************************
- * Source code information
- * -----------------------
- * Filename $RCSfile: MartServiceIconsTest.java,v $
- * Revision $Revision: 1.1 $
- * Release status $State: Exp $
- * Last modified on $Date: 2007/01/31 14:12:16 $
- * by $Author: davidwithers $
- * Created on 24-Aug-2006
- *****************************************************************/
-package org.biomart.martservice.config.ui;
-
-import junit.framework.TestCase;
-
-/**
- *
- * @author witherd5
- */
-public class MartServiceIconsTest extends TestCase {
-
- /* (non-Javadoc)
- * @see junit.framework.TestCase#setUp()
- */
- protected void setUp() throws Exception {
- super.setUp();
- }
-
- /**
- * Test method for {@link org.biomart.martservice.config.ui.MartServiceIcons#getIcon(java.lang.String)}.
- */
- public void testGetIcon() {
- assertNotNull(MartServiceIcons.getIcon("gene_schematic"));
- assertNotNull(MartServiceIcons.getIcon("gene_schematic"));
- assertNotNull(MartServiceIcons.getIcon("gene_schematic_3utr"));
- assertNotNull(MartServiceIcons.getIcon("gene_schematic_5utr"));
- assertNotNull(MartServiceIcons.getIcon("gene_schematic_cdna"));
- assertNotNull(MartServiceIcons.getIcon("gene_schematic_coding_gene_flank"));
- assertNotNull(MartServiceIcons.getIcon("gene_schematic_coding_transcript_flank"));
- assertNotNull(MartServiceIcons.getIcon("gene_schematic_coding"));
- assertNotNull(MartServiceIcons.getIcon("gene_schematic_gene_exon_intron"));
- assertNotNull(MartServiceIcons.getIcon("gene_schematic_gene_exon"));
- assertNotNull(MartServiceIcons.getIcon("gene_schematic_gene_flank"));
- assertNotNull(MartServiceIcons.getIcon("gene_schematic_peptide"));
- assertNotNull(MartServiceIcons.getIcon("gene_schematic_transcript_exon_intron"));
- assertNotNull(MartServiceIcons.getIcon("gene_schematic_transcript_exon"));
- assertNotNull(MartServiceIcons.getIcon("gene_schematic_transcript_flank"));
- assertNotNull(MartServiceIcons.getIcon("expand"));
- assertNotNull(MartServiceIcons.getIcon("contract"));
- assertNull(MartServiceIcons.getIcon("something else"));
- assertNull(MartServiceIcons.getIcon(""));
- assertNull(MartServiceIcons.getIcon(null));
- }
-
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-plugin-bioinformatics/blob/9e08cac0/src/test/java/org/biomart/martservice/query/AttributeTest.java
----------------------------------------------------------------------
diff --git a/src/test/java/org/biomart/martservice/query/AttributeTest.java b/src/test/java/org/biomart/martservice/query/AttributeTest.java
deleted file mode 100644
index 5ac4c9e..0000000
--- a/src/test/java/org/biomart/martservice/query/AttributeTest.java
+++ /dev/null
@@ -1,164 +0,0 @@
-/*
- * Copyright (C) 2003 The University of Manchester
- *
- * Modifications to the initial code base are copyright of their
- * respective authors, or their employers as appropriate. Authorship
- * of the modifications may be determined from the ChangeLog placed at
- * the end of this file.
- *
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU Lesser General Public License
- * as published by the Free Software Foundation; either version 2.1 of
- * the License, or (at your option) any later version.
- *
- * This program is distributed in the hope that it will be useful, but
- * WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- * Lesser General Public License for more details.
- *
- * You should have received a copy of the GNU Lesser General Public
- * License along with this program; if not, write to the Free Software
- * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307
- * USA.
- *
- ****************************************************************
- * Source code information
- * -----------------------
- * Filename $RCSfile: AttributeTest.java,v $
- * Revision $Revision: 1.2 $
- * Release status $State: Exp $
- * Last modified on $Date: 2008/03/04 16:43:40 $
- * by $Author: davidwithers $
- * Created on 02-May-2006
- *****************************************************************/
-package org.biomart.martservice.query;
-
-import org.junit.Test;
-import org.junit.Before;
-import static org.junit.Assert.assertEquals;
-import static org.junit.Assert.assertNull;
-
-/**
- *
- * @author David Withers
- */
-public class AttributeTest {
- private String attributeName;
-
- private String attributes;
-
- private Dataset dataset;
-
- private Attribute attribute;
-
- @Before
- public void setUp() throws Exception {
- attributeName = "attribute name";
- attributes = "attributes";
- dataset = new Dataset("dataset name");
- attribute = new Attribute(attributeName);
- }
-
- @Test
- public void AttributeString() {
- Attribute attribute = new Attribute(attributeName);
- assertEquals("Name should be '" + attributeName + "'", attribute
- .getName(), attributeName);
- }
-
- @Test
- public void AttributeAttribute() {
- attribute.setContainingDataset(dataset);
- Attribute copy = new Attribute(attribute);
- assertEquals(attribute.getName(), copy.getName());
- assertNull(copy.getContainingDataset());
- }
-
- @Test
- public final void getName() {
- assertEquals("Name should be '" + attributeName + "'", attribute
- .getName(), attributeName);
- }
-
- @Test (expected=IllegalArgumentException.class)
- public final void setName() {
- String newName = "new attribute name";
- attribute.setName(newName);
- assertEquals("Name should be '" + newName + "'", attribute.getName(),
- newName);
- attribute.setName(null);
- }
-
- @Test
- public final void getQualifiedName() {
- assertEquals("Qualified name should be '" + attributeName + "'",
- attribute.getQualifiedName(), attributeName);
-
- String qualifiedName = dataset.getName() + "." + attributeName;
- attribute.setContainingDataset(dataset);
- assertEquals("Qualified name should be '" + qualifiedName + "'",
- attribute.getQualifiedName(), qualifiedName);
-
- dataset.setName("new dataset name");
- qualifiedName = dataset.getName() + "." + attributeName;
- attribute.setContainingDataset(dataset);
- assertEquals("Qualified name should be '" + qualifiedName + "'",
- attribute.getQualifiedName(), qualifiedName);
-
- attribute.setContainingDataset(null);
- assertEquals("Qualified name should be '" + attributeName + "'",
- attribute.getQualifiedName(), attributeName);
- }
-
- @Test
- public void getAttributes() {
- assertNull(attribute.getAttributes());
- attribute.setAttributes(attributes);
- assertEquals("Attributes should be '" + attributes + "'", attribute
- .getAttributes(), attributes);
- }
-
- @Test
- public void setAttributes() {
- String newAttributes = "new attributes";
- attribute.setAttributes(newAttributes);
- assertEquals("Attributes should be '" + newAttributes + "'", attribute.getAttributes(),
- newAttributes);
- attribute.setAttributes(null);
- assertNull(attribute.getAttributes());
- }
-
- @Test
- public void testGetAttributesCount() {
- assertEquals(attribute.getAttributesCount(), 0);
- attribute.setAttributes("a");
- assertEquals(attribute.getAttributesCount(), 1);
- attribute.setAttributes("a,b,c");
- assertEquals(attribute.getAttributesCount(), 3);
- attribute.setAttributes(null);
- assertEquals(attribute.getAttributesCount(), 0);
- }
-
- @Test
- public void getContainingDataset() {
- assertNull(attribute.getContainingDataset());
- dataset.addAttribute(attribute);
- assertEquals(attribute.getContainingDataset(), dataset);
- }
-
- @Test
- public void setContainingDataset() {
- attribute.setContainingDataset(dataset);
- assertEquals(attribute.getContainingDataset(), dataset);
- attribute.setContainingDataset(null);
- assertNull(attribute.getContainingDataset());
- }
-
- @Test
- public void hashCodeTest() {
- Attribute attribute2 = new Attribute(attributeName);
- assertEquals(attribute.hashCode(), attribute.hashCode());
- assertEquals(attribute.hashCode(), attribute2.hashCode());
- }
-
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-plugin-bioinformatics/blob/9e08cac0/src/test/java/org/biomart/martservice/query/DatasetTest.java
----------------------------------------------------------------------
diff --git a/src/test/java/org/biomart/martservice/query/DatasetTest.java b/src/test/java/org/biomart/martservice/query/DatasetTest.java
deleted file mode 100644
index 374ce5d..0000000
--- a/src/test/java/org/biomart/martservice/query/DatasetTest.java
+++ /dev/null
@@ -1,308 +0,0 @@
-/*
- * Copyright (C) 2003 The University of Manchester
- *
- * Modifications to the initial code base are copyright of their
- * respective authors, or their employers as appropriate. Authorship
- * of the modifications may be determined from the ChangeLog placed at
- * the end of this file.
- *
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU Lesser General Public License
- * as published by the Free Software Foundation; either version 2.1 of
- * the License, or (at your option) any later version.
- *
- * This program is distributed in the hope that it will be useful, but
- * WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- * Lesser General Public License for more details.
- *
- * You should have received a copy of the GNU Lesser General Public
- * License along with this program; if not, write to the Free Software
- * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307
- * USA.
- *
- ****************************************************************
- * Source code information
- * -----------------------
- * Filename $RCSfile: DatasetTest.java,v $
- * Revision $Revision: 1.1 $
- * Release status $State: Exp $
- * Last modified on $Date: 2007/01/31 14:12:10 $
- * by $Author: davidwithers $
- * Created on 03-May-2006
- *****************************************************************/
-package org.biomart.martservice.query;
-
-import junit.framework.TestCase;
-
-/**
- *
- * @author David Withers
- */
-public class DatasetTest extends TestCase {
- private String attributeName;
-
- private Attribute attribute;
-
- private String filterName;
-
- private String filterValue;
-
- private Filter filter;
-
-// private Link link;
-
- private String datasetName;
-
- private Dataset dataset;
-
- private Query query;
-
- /*
- * @see TestCase#setUp()
- */
- protected void setUp() throws Exception {
- super.setUp();
- attributeName = "attribute name";
- attribute = new Attribute(attributeName);
-
- filterName = "filter name";
- filterValue = "filter value";
- filter = new Filter(filterName, filterValue);
-
-// link = new Link("source", "target", "id");
-
- datasetName = "dataset name";
- dataset = new Dataset(datasetName);
-
- query = new Query("default");
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Dataset.Dataset(String)'
- */
- public final void testDatasetString() {
- Dataset dataset = new Dataset(datasetName);
- assertEquals("Name should be '" + datasetName + "'", dataset.getName(),
- datasetName);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Dataset.Dataset(Dataset)'
- */
- public final void testDatasetDataset() {
- dataset.addAttribute(attribute);
- dataset.addFilter(filter);
- Dataset copy = new Dataset(dataset);
- assertEquals("Name should be '" + datasetName + "'", copy.getName(),
- datasetName);
- assertEquals(copy.getAttributes().size(), 1);
- assertEquals(((Attribute) copy.getAttributes().get(0)).getName(),
- attribute.getName());
- assertEquals(copy.getFilters().size(), 1);
- assertEquals(((Filter) copy.getFilters().get(0)).getName(), filter
- .getName());
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Dataset.getName()'
- */
- public final void testGetName() {
- assertEquals("Name should be '" + datasetName + "'", dataset.getName(),
- datasetName);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Dataset.setName(String)'
- */
- public final void testSetName() {
- String newName = "new dataset name";
- filter.setName(newName);
- assertEquals("Name should be '" + newName + "'", filter.getName(),
- newName);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Dataset.getAttributes()'
- */
- public final void testGetAttributes() {
- assertEquals(dataset.getAttributes().size(), 0);
- dataset.addAttribute(attribute);
- assertEquals(dataset.getAttributes().size(), 1);
- assertEquals(dataset.getAttributes().get(0), attribute);
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.query.Dataset.addAttribute(Attribute)'
- */
- public final void testAddAttribute() {
- assertTrue(dataset.addAttribute(attribute));
- assertFalse(dataset.addAttribute(attribute));
- assertEquals(dataset.getAttributes().size(), 1);
- assertEquals(dataset.getAttributes().get(0), attribute);
- query.addDataset(dataset);
- assertTrue(dataset.addAttribute(new Attribute("new attribute")));
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.query.Dataset.addAttributes(Attribute[])'
- */
- public final void testAddAttributes() {
- dataset.addAttributes(new Attribute[] {});
- assertEquals(dataset.getAttributes().size(), 0);
- dataset.addAttributes(new Attribute[] { attribute });
- assertEquals(dataset.getAttributes().size(), 1);
- assertEquals(dataset.getAttributes().get(0), attribute);
- Attribute anotherAttribute = new Attribute("another attribute");
- dataset.addAttributes(new Attribute[] { attribute, anotherAttribute });
- assertEquals(dataset.getAttributes().size(), 2);
- assertEquals(dataset.getAttributes().get(0), attribute);
- assertEquals(dataset.getAttributes().get(1), anotherAttribute);
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.query.Dataset.hasAttribute(Attribute)'
- */
- public final void testHasAttribute() {
- assertFalse(dataset.hasAttribute(attribute));
- dataset.addAttribute(attribute);
- assertTrue(dataset.hasAttribute(attribute));
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Dataset.hasAttributes()'
- */
- public final void testHasAttributes() {
- assertFalse(dataset.hasAttributes());
- dataset.addAttribute(attribute);
- assertTrue(dataset.hasAttributes());
- dataset.removeAttribute(attribute);
- assertFalse(dataset.hasAttributes());
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.query.Dataset.removeAttribute(Attribute)'
- */
- public final void testRemoveAttribute() {
- assertFalse(dataset.removeAttribute(attribute));
- dataset.addAttribute(attribute);
- assertTrue(dataset.removeAttribute(attribute));
- assertEquals(dataset.getAttributes().size(), 0);
- query.addDataset(dataset);
- dataset.addAttribute(attribute);
- assertTrue(dataset.removeAttribute(attribute));
- }
-
- public void testRemoveAllAttributes() {
- dataset.removeAllAttributes();
- assertFalse(dataset.hasAttributes());
- dataset.addAttribute(attribute);
- dataset.removeAllAttributes();
- assertFalse(dataset.hasAttributes());
- dataset.addAttributes(new Attribute[] { attribute, new Attribute("new attribute") });
- dataset.removeAllAttributes();
- assertFalse(dataset.hasAttributes());
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Dataset.getFilters()'
- */
- public final void testGetFilters() {
- assertEquals(dataset.getFilters().size(), 0);
- dataset.addFilter(filter);
- assertEquals(dataset.getFilters().size(), 1);
- assertEquals(dataset.getFilters().get(0), filter);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Dataset.addFilter(Filter)'
- */
- public final void testAddFilter() {
- assertTrue(dataset.addFilter(filter));
- assertFalse(dataset.addFilter(filter));
- assertEquals(dataset.getFilters().size(), 1);
- assertEquals(dataset.getFilters().get(0), filter);
- query.addDataset(dataset);
- assertTrue(dataset.addFilter(new Filter("new filter")));
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.query.Dataset.addFilters(Filter[])'
- */
- public final void testAddFilters() {
- dataset.addFilters(new Filter[] {});
- assertEquals(dataset.getFilters().size(), 0);
- dataset.addFilters(new Filter[] { filter });
- assertEquals(dataset.getFilters().size(), 1);
- assertEquals(dataset.getFilters().get(0), filter);
- Filter anotherFilter = new Filter("another filter");
- dataset.addFilters(new Filter[] { filter, anotherFilter });
- assertEquals(dataset.getFilters().size(), 2);
- assertEquals(dataset.getFilters().get(0), filter);
- assertEquals(dataset.getFilters().get(1), anotherFilter);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Dataset.hasFilter(Filter)'
- */
- public final void testHasFilter() {
- assertFalse(dataset.hasFilter(filter));
- dataset.addFilter(filter);
- assertTrue(dataset.hasFilter(filter));
- dataset.removeFilter(filter);
- assertFalse(dataset.hasFilters());
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Dataset.hasFilters()'
- */
- public final void testHasFilters() {
- assertFalse(dataset.hasFilters());
- dataset.addFilter(filter);
- assertTrue(dataset.hasFilters());
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.query.Dataset.removeFilter(Filter)'
- */
- public final void testRemoveFilter() {
- assertFalse(dataset.removeFilter(filter));
- dataset.addFilter(filter);
- assertTrue(dataset.removeFilter(filter));
- assertEquals(dataset.getFilters().size(), 0);
- query.addDataset(dataset);
- dataset.addFilter(filter);
- assertTrue(dataset.removeFilter(filter));
- }
-
- public void testRemoveAllFilters() {
- dataset.removeAllFilters();
- assertFalse(dataset.hasFilters());
- dataset.addFilter(filter);
- dataset.removeAllFilters();
- assertFalse(dataset.hasFilters());
- dataset.addFilters(new Filter[] { filter, new Filter("new filter") });
- dataset.removeAllFilters();
- assertFalse(dataset.hasFilters());
- }
-
- public void testGetContainingQuery() {
- assertNull(dataset.getContainingQuery());
- query.addDataset(dataset);
- assertEquals(dataset.getContainingQuery(), query);
- }
-
- public void testSetContainingQuery() {
- dataset.setContainingQuery(query);
- assertEquals(dataset.getContainingQuery(), query);
- dataset.setContainingQuery(null);
- assertNull(dataset.getContainingQuery());
- }
-
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-plugin-bioinformatics/blob/9e08cac0/src/test/java/org/biomart/martservice/query/FilterTest.java
----------------------------------------------------------------------
diff --git a/src/test/java/org/biomart/martservice/query/FilterTest.java b/src/test/java/org/biomart/martservice/query/FilterTest.java
deleted file mode 100644
index 2d0be4e..0000000
--- a/src/test/java/org/biomart/martservice/query/FilterTest.java
+++ /dev/null
@@ -1,242 +0,0 @@
-/*
- * Copyright (C) 2003 The University of Manchester
- *
- * Modifications to the initial code base are copyright of their
- * respective authors, or their employers as appropriate. Authorship
- * of the modifications may be determined from the ChangeLog placed at
- * the end of this file.
- *
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU Lesser General Public License
- * as published by the Free Software Foundation; either version 2.1 of
- * the License, or (at your option) any later version.
- *
- * This program is distributed in the hope that it will be useful, but
- * WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- * Lesser General Public License for more details.
- *
- * You should have received a copy of the GNU Lesser General Public
- * License along with this program; if not, write to the Free Software
- * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307
- * USA.
- *
- ****************************************************************
- * Source code information
- * -----------------------
- * Filename $RCSfile: FilterTest.java,v $
- * Revision $Revision: 1.1 $
- * Release status $State: Exp $
- * Last modified on $Date: 2007/01/31 14:12:10 $
- * by $Author: davidwithers $
- * Created on 03-May-2006
- *****************************************************************/
-package org.biomart.martservice.query;
-
-import junit.framework.TestCase;
-
-/**
- *
- * @author David Withers
- */
-public class FilterTest extends TestCase {
- private String filterName;
-
- private String filterValue;
-
- private Dataset dataset;
-
- private Filter filter;
-
- private Query query;
-
- /*
- * @see TestCase#setUp()
- */
- protected void setUp() throws Exception {
- super.setUp();
- filterName = "filter name";
- filterValue = "filter value";
- dataset = new Dataset("dataset name");
- filter = new Filter(filterName, filterValue);
- query = new Query("default");
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Filter.Filter(String)'
- */
- public final void testFilterString() {
- Filter filter = new Filter(filterName);
- assertEquals("Name should be '" + filterName + "'", filter.getName(),
- filterName);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Filter.Filter(String,
- * String)'
- */
- public final void testFilterStringString() {
- Filter filter = new Filter(filterName, filterValue);
- assertEquals("Name should be '" + filterName + "'", filter.getName(),
- filterName);
- assertEquals("Value should be '" + filterValue + "'",
- filter.getValue(), filterValue);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Filter.Filter(String,
- * String, boolean)'
- */
- public final void testFilterStringStringBoolean() {
- Filter filter = new Filter(filterName, filterValue, true);
- assertEquals("Name should be '" + filterName + "'", filter.getName(),
- filterName);
- assertEquals("Value should be '" + filterValue + "'",
- filter.getValue(), filterValue);
- assertTrue("isBoolean should be true", filter.isBoolean());
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Filter.Filter(Filter)'
- */
- public final void testFilterFilter() {
- filter.setContainingDataset(dataset);
- Filter copy = new Filter(filter);
- assertEquals("Name should be '" + filterName + "'", copy.getName(),
- filterName);
- assertEquals("Value should be '" + filterValue + "'", copy.getValue(),
- filterValue);
- assertFalse("isBoolean should be false", copy.isBoolean());
- assertNull(copy.getContainingDataset());
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.query.Filter.getContainingDataset()'
- */
- public final void testGetContainingDataset() {
- assertNull("Default should be NULL ", filter.getContainingDataset());
- dataset.addFilter(filter);
- assertEquals(filter.getContainingDataset(), dataset);
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.query.Filter.setContainingDataset(Dataset)'
- */
- public final void testSetContainingDataset() {
- filter.setContainingDataset(dataset);
- assertEquals(filter.getContainingDataset(), dataset);
- filter.setContainingDataset(null);
- assertNull(filter.getContainingDataset());
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Filter.getName()'
- */
- public final void testGetName() {
- assertEquals("Name should be '" + filterName + "'", filter.getName(),
- filterName);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Filter.setName(String)'
- */
- public final void testSetName() {
- String newName = "new filter name";
- filter.setName(newName);
- assertEquals("Name should be '" + newName + "'", filter.getName(),
- newName);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Filter.getValue()'
- */
- public final void testGetValue() {
- assertEquals("Value should be '" + filterValue + "'",
- filter.getValue(), filterValue);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Filter.setValue(String)'
- */
- public final void testSetValue() {
- String newValue = "new filter value";
- filter.setValue(newValue);
- assertEquals("Value should be '" + newValue + "'", filter.getValue(),
- newValue);
- filter.setValue(null);
- assertNull(filter.getValue());
- filter.setValue(null);
- assertNull(filter.getValue());
- filter.setValue(newValue);
- assertEquals("Value should be '" + newValue + "'", filter.getValue(),
- newValue);
- filter.setValue(newValue);
- assertEquals("Value should be '" + newValue + "'", filter.getValue(),
- newValue);
- dataset.addFilter(filter);
- filter.setValue(null);
- filter.setValue(newValue);
- assertEquals("Value should be '" + newValue + "'", filter.getValue(),
- newValue);
- query.addDataset(dataset);
- filter.setValue(null);
- filter.setValue(newValue);
- assertEquals("Value should be '" + newValue + "'", filter.getValue(),
- newValue);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Filter.isBoolean()'
- */
- public final void testIsBoolean() {
- assertFalse("Default should be false", filter.isBoolean());
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.query.Filter.setBoolean(boolean)'
- */
- public final void testSetBoolean() {
- filter.setBoolean(true);
- assertTrue("isBoolean should be true", filter.isBoolean());
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Filter.getQualifiedName()'
- */
- public final void testGetQualifiedName() {
- assertEquals("Qualified name should be '" + filterName + "'", filter
- .getQualifiedName(), filterName);
-
- String qualifiedName = dataset.getName() + "." + filterName;
- filter.setContainingDataset(dataset);
- assertEquals("Qualified name should be '" + qualifiedName + "'", filter
- .getQualifiedName(), qualifiedName);
-
- dataset.setName("new dataset name");
- qualifiedName = dataset.getName() + "." + filterName;
- filter.setContainingDataset(dataset);
- assertEquals("Qualified name should be '" + qualifiedName + "'", filter
- .getQualifiedName(), qualifiedName);
-
- filter.setContainingDataset(null);
- assertEquals("Qualified name should be '" + filterName + "'", filter
- .getQualifiedName(), filterName);
- }
-
- public void testIsList() {
- assertFalse(filter.isList());
- filter.setList(true);
- assertTrue(filter.isList());
- }
-
- public void testSetList() {
- filter.setList(false);
- assertFalse(filter.isList());
- filter.setList(true);
- assertTrue(filter.isList());
- }
-
-}
http://git-wip-us.apache.org/repos/asf/incubator-taverna-plugin-bioinformatics/blob/9e08cac0/src/test/java/org/biomart/martservice/query/QueryTest.java
----------------------------------------------------------------------
diff --git a/src/test/java/org/biomart/martservice/query/QueryTest.java b/src/test/java/org/biomart/martservice/query/QueryTest.java
deleted file mode 100644
index b2b93cc..0000000
--- a/src/test/java/org/biomart/martservice/query/QueryTest.java
+++ /dev/null
@@ -1,303 +0,0 @@
-/*
- * Copyright (C) 2003 The University of Manchester
- *
- * Modifications to the initial code base are copyright of their
- * respective authors, or their employers as appropriate. Authorship
- * of the modifications may be determined from the ChangeLog placed at
- * the end of this file.
- *
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU Lesser General Public License
- * as published by the Free Software Foundation; either version 2.1 of
- * the License, or (at your option) any later version.
- *
- * This program is distributed in the hope that it will be useful, but
- * WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
- * Lesser General Public License for more details.
- *
- * You should have received a copy of the GNU Lesser General Public
- * License along with this program; if not, write to the Free Software
- * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307
- * USA.
- *
- ****************************************************************
- * Source code information
- * -----------------------
- * Filename $RCSfile: QueryTest.java,v $
- * Revision $Revision: 1.3 $
- * Release status $State: Exp $
- * Last modified on $Date: 2007/10/01 12:11:30 $
- * by $Author: davidwithers $
- * Created on 03-May-2006
- *****************************************************************/
-package org.biomart.martservice.query;
-
-import junit.framework.TestCase;
-
-/**
- *
- * @author David Withers
- */
-public class QueryTest extends TestCase {
- private String attributeName;
-
- private Attribute attribute;
-
- private String filterName;
-
- private String filterValue;
-
- private Filter filter;
-
- private Link link;
-
- private String datasetName;
-
- private Dataset dataset;
-
- private String virtualSchemaName;
-
- private String softwareVersion;
-
- private String formatter;
-
- private Query query;
-
- /*
- * @see TestCase#setUp()
- */
- protected void setUp() throws Exception {
- super.setUp();
- attributeName = "attribute name";
- attribute = new Attribute(attributeName);
-
- filterName = "filter name";
- filterValue = "filter value";
- filter = new Filter(filterName, filterValue);
-
- link = new Link("source", "target", "id");
-
- datasetName = "dataset name";
- dataset = new Dataset(datasetName);
-
- dataset.addAttribute(attribute);
- dataset.addFilter(filter);
-
- virtualSchemaName = "default";
-
- softwareVersion = "software version";
-
- formatter = "page formatter";
-
- query = new Query(virtualSchemaName);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.Query(String)'
- */
- public final void testQueryString() {
- Query query = new Query(virtualSchemaName);
- assertEquals("virtualSchemaName should be '" + virtualSchemaName + "'",
- query.getVirtualSchemaName(), virtualSchemaName);
- assertEquals("count should be '0'", query.getCount(), 0);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.Query(String, int)'
- */
- public final void testQueryStringInt() {
- Query query = new Query(virtualSchemaName, 1);
- assertEquals("virtualSchemaName should be '" + virtualSchemaName + "'",
- query.getVirtualSchemaName(), virtualSchemaName);
- assertEquals("count should be '1'", query.getCount(), 1);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.Query(Query)'
- */
- public final void testQueryQuery() {
- query.addDataset(dataset);
- query.addLink(link);
- query.setCount(1);
- query.setUniqueRows(1);
- query.setSoftwareVersion(softwareVersion);
- query.setFormatter(formatter);
- Query copy = new Query(query);
- assertEquals(copy.getDatasets().size(), 1);
- assertEquals(copy.getAttributes().size(), 1);
- assertEquals(copy.getFilters().size(), 1);
- assertEquals(copy.getLinks().size(), 1);
- assertEquals(copy.getCount(), 1);
- assertEquals(copy.getUniqueRows(), 1);
- assertEquals(copy.getSoftwareVersion(), softwareVersion);
- assertEquals(copy.getFormatter(), formatter);
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.query.Query.getVirtualSchemaName()'
- */
- public final void testGetVirtualSchemaName() {
- assertEquals("virtualSchemaName should be '" + virtualSchemaName + "'",
- query.getVirtualSchemaName(), virtualSchemaName);
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.query.Query.setVirtualSchemaName(String)'
- */
- public final void testSetVirtualSchemaName() {
- String newVirtualSchemaName = "new virtual schema name";
- query.setVirtualSchemaName(newVirtualSchemaName);
- assertEquals("virtualSchemaName should be '" + newVirtualSchemaName
- + "'", query.getVirtualSchemaName(), newVirtualSchemaName);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.getCount()'
- */
- public final void testGetCount() {
- assertEquals("count should be '0'", query.getCount(), 0);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.setCount(int)'
- */
- public final void testSetCount() {
- query.setCount(1);
- assertEquals("count should be '1'", query.getCount(), 1);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.getUniqueRows()'
- */
- public final void testGetUniqueRows() {
- assertEquals("uniqueRows should be '0'", query.getUniqueRows(), 0);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.setUniqueRows(int)'
- */
- public final void testSetUniqueRows() {
- query.setUniqueRows(1);
- assertEquals("uniqueRows should be '1'", query.getUniqueRows(), 1);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.getSoftwareVersion()'
- */
- public final void testGetSoftwareVersion() {
- assertNull("softwareVersion should be null", query.getSoftwareVersion());
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.setSoftwareVersion(String)'
- */
- public final void testSetSoftwareVersion() {
- String newSoftwareVersion = "new software version";
- query.setSoftwareVersion(newSoftwareVersion);
- assertEquals("softwareVersion should be '" + newSoftwareVersion + "'", query.getSoftwareVersion(), newSoftwareVersion);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.getFormatter()'
- */
- public final void testGetFormatter() {
- assertNull("formatter should be null", query.getFormatter());
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.setFormatter(String)'
- */
- public final void testSetFormatter() {
- String newFormatter = "new formatter";
- query.setFormatter(newFormatter);
- assertEquals("formatter should be '" + newFormatter + "'", query.getFormatter(), newFormatter);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.getRequestId()'
- */
- public final void testGetRequestId() {
- assertNull("requestId should be null", query.getRequestId());
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.setnewRequestId(String)'
- */
- public final void testSetRequestId() {
- String newRequestId = "new RequestId";
- query.setRequestId(newRequestId);
- assertEquals("requestId should be '" + newRequestId + "'", query.getRequestId(), newRequestId);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.addDataset(Dataset)'
- */
- public final void testAddDataset() {
- query.addDataset(dataset);
- assertEquals(query.getDatasets().size(), 1);
- assertSame(query.getDatasets().get(0), dataset);
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.query.Query.removeDataset(Dataset)'
- */
- public final void testRemoveDataset() {
- query.addDataset(dataset);
- query.removeDataset(dataset);
- assertEquals(query.getDatasets().size(), 0);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.getDatasets()'
- */
- public final void testGetDatasets() {
- query.addDataset(dataset);
- assertEquals(query.getDatasets().size(), 1);
- assertSame(query.getDatasets().get(0), dataset);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.getDataset(String)'
- */
- public final void testGetDataset() {
- query.addDataset(dataset);
- assertSame(query.getDataset(dataset.getName()), dataset);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.getAttributes()'
- */
- public final void testGetAttributes() {
- query.addDataset(dataset);
- assertEquals(query.getAttributes().size(), 1);
- assertSame(query.getAttributes().get(0), attribute);
- }
-
- /*
- * Test method for 'org.biomart.martservice.query.Query.getFilters()'
- */
- public final void testGetFilters() {
- query.addDataset(dataset);
- assertEquals(query.getFilters().size(), 1);
- assertSame(query.getFilters().get(0), filter);
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.query.Query.addQueryListener(QueryListener)'
- */
- public final void testAddQueryListener() {
- }
-
- /*
- * Test method for
- * 'org.biomart.martservice.query.Query.removeQueryListener(QueryListener)'
- */
- public final void testRemoveQueryListener() {
- }
-
-}