Author: clopes
Date: 2012-09-06 07:38:42 -0700 (Thu, 06 Sep 2012)
New Revision: 30323
Added:
core3/impl/trunk/session-impl/integration-test/src/test/java/org/cytoscape/session/Cy3SubnetworksSessionLoadingTest.java
core3/impl/trunk/session-impl/integration-test/src/test/resources/testData/session3x/subnetworks.cys
Log:
refs #1383 : testing subnetworks and nested networks, as well as other related
states.
Added:
core3/impl/trunk/session-impl/integration-test/src/test/java/org/cytoscape/session/Cy3SubnetworksSessionLoadingTest.java
===================================================================
---
core3/impl/trunk/session-impl/integration-test/src/test/java/org/cytoscape/session/Cy3SubnetworksSessionLoadingTest.java
(rev 0)
+++
core3/impl/trunk/session-impl/integration-test/src/test/java/org/cytoscape/session/Cy3SubnetworksSessionLoadingTest.java
2012-09-06 14:38:42 UTC (rev 30323)
@@ -0,0 +1,150 @@
+package org.cytoscape.session;
+
+import static org.cytoscape.model.CyNetwork.DEFAULT_ATTRS;
+import static org.cytoscape.model.CyNetwork.HIDDEN_ATTRS;
+import static org.cytoscape.model.CyNetwork.LOCAL_ATTRS;
+import static org.cytoscape.model.CyNetwork.NAME;
+import static org.cytoscape.model.CyNetwork.SELECTED;
+import static org.cytoscape.model.subnetwork.CyRootNetwork.SHARED_ATTRS;
+import static
org.cytoscape.model.subnetwork.CyRootNetwork.SHARED_DEFAULT_ATTRS;
+import static org.junit.Assert.*;
+
+import java.io.File;
+import java.util.Set;
+
+import org.cytoscape.model.CyEdge;
+import org.cytoscape.model.CyIdentifiable;
+import org.cytoscape.model.CyNetwork;
+import org.cytoscape.model.CyNode;
+import org.cytoscape.model.CyRow;
+import org.cytoscape.model.SavePolicy;
+import org.cytoscape.model.subnetwork.CySubNetwork;
+import org.cytoscape.work.TaskIterator;
+import org.junit.Before;
+import org.junit.Test;
+import org.junit.runner.RunWith;
+import org.ops4j.pax.exam.junit.ExamReactorStrategy;
+import org.ops4j.pax.exam.junit.JUnit4TestRunner;
+import org.ops4j.pax.exam.spi.reactors.AllConfinedStagedReactorFactory;
+
+@RunWith(JUnit4TestRunner.class)
+@ExamReactorStrategy(AllConfinedStagedReactorFactory.class)
+public class Cy3SubnetworksSessionLoadingTest extends BasicIntegrationTest {
+
+ @Before
+ public void setup() throws Exception {
+ sessionFile = new
File("./src/test/resources/testData/session3x/", "subnetworks.cys");
+ checkBasicConfiguration();
+ }
+
+ @Test
+ public void testLoadSession() throws Exception {
+ final TaskIterator ti =
openSessionTF.createTaskIterator(sessionFile);
+ tm.execute(ti);
+ confirm();
+ }
+
+ private void confirm() {
+ checkGlobalStatus();
+ checkNetworks();
+ }
+
+ private void checkGlobalStatus() {
+ assertEquals(5, networkManager.getNetworkSet().size());
+ assertEquals(4, viewManager.getNetworkViewSet().size());
+ assertEquals(1,
applicationManager.getSelectedNetworks().size());
+ assertEquals(0,
applicationManager.getSelectedNetworkViews().size());
+ assertEquals(getNetworkByName("Na.1.1"),
applicationManager.getCurrentNetwork());
+ assertNull(applicationManager.getCurrentNetworkView());
+ assertEquals("default", vmm.getDefaultVisualStyle().getTitle());
+ assertEquals(6, vmm.getAllVisualStyles().size());
+ }
+
+ private void checkNetworks() {
+ Set<CyNetwork> networks = networkManager.getNetworkSet();
+
+ for (CyNetwork net : networks)
+ assertEquals(SavePolicy.SESSION_FILE,
net.getSavePolicy());
+
+ CyNetwork na = getNetworkByName("Na");
+ CyNetwork na1 = getNetworkByName("Na.1");
+ CyNetwork na11 = getNetworkByName("Na.1.1");
+ CyNetwork nb = getNetworkByName("Nb");
+ CyNetwork nb1 = getNetworkByName("Nb.1");
+
+ // Correct base networks
+ assertEquals(na, ((CySubNetwork)
na1).getRootNetwork().getBaseNetwork());
+ assertEquals(nb, ((CySubNetwork)
nb1).getRootNetwork().getBaseNetwork());
+
+ // Subnetworks' node/edge count and selection
+ checkNodeEdgeCount(na, 3, 2, 2, 1);
+ checkNodeEdgeCount(na1, 3, 1, 1, 0);
+ checkNodeEdgeCount(na11, 1, 0, 1, 0);
+ checkNodeEdgeCount(nb, 2, 2, 0, 1);
+ checkNodeEdgeCount(nb1, 1, 1, 0, 1);
+
+ checkSelection(na, getNodeByName(na, "Node 1"), true);
+ checkSelection(na, getNodeByName(na, "Node 2"), true);
+ checkSelection(na, getNodeByName(na, "Node 3"), false);
+ checkSelection(na, getEdgeByName(na, "Node 1 (interaction) Node
2"), true);
+ checkSelection(na, getEdgeByName(na, "Node 2 (interaction) Node
3"), false);
+ checkSelection(na1, getNodeByName(na1, "Node 2"), false);
+ checkSelection(nb, getEdgeByName(nb, "Node 6 (interaction) Node
5"), true);
+
+ // Root-networks' node/edge count and selection
+ checkNodeEdgeCount(((CySubNetwork) na).getRootNetwork(), 4, 2,
0, 0);
+ checkNodeEdgeCount(((CySubNetwork) nb).getRootNetwork(), 2, 3,
0, 0);
+
+ // Network pointers
+ assertEquals(nb, getNodeByName(na, "Node
1").getNetworkPointer());
+ assertEquals(na1, getNodeByName(na, "Node
3").getNetworkPointer());
+ assertEquals(na1, getNodeByName(na1, "Node
3").getNetworkPointer());
+ assertEquals(nb1, getNodeByName(nb, "Node
5").getNetworkPointer());
+ assertEquals(na, getNodeByName(nb, "Node
6").getNetworkPointer());
+ assertEquals(na, getNodeByName(nb1, "Node
6").getNetworkPointer());
+
+ // Styles
+ assertEquals("Sample1",
vmm.getVisualStyle(viewManager.getNetworkViews(na).iterator().next()).getTitle());
+ assertEquals("Minimal",
vmm.getVisualStyle(viewManager.getNetworkViews(na1).iterator().next()).getTitle());
+ assertEquals("Directed",
vmm.getVisualStyle(viewManager.getNetworkViews(nb).iterator().next()).getTitle());
+ assertEquals("Ripple",
vmm.getVisualStyle(viewManager.getNetworkViews(nb1).iterator().next()).getTitle());
+ }
+
+ private void checkNodeEdgeCount(CyNetwork net, int nodeCount, int
edgeCount, int selectedNodes, int selectedEdges) {
+ assertEquals(net + ": incorrect selection", nodeCount,
net.getNodeCount());
+ assertEquals(net + ": incorrect selection", edgeCount,
net.getEdgeCount());
+ assertEquals(net + ": incorrect selection", selectedNodes,
net.getTable(CyNode.class, LOCAL_ATTRS).getMatchingRows(SELECTED, true).size());
+ assertEquals(net + ": incorrect selection", selectedEdges,
net.getTable(CyEdge.class, LOCAL_ATTRS).getMatchingRows(SELECTED, true).size());
+ }
+
+ private void checkSelection(CyNetwork net, CyIdentifiable element,
boolean selected) {
+ assertEquals(selected, net.getRow(element,
LOCAL_ATTRS).get(SELECTED, Boolean.class));
+ }
+
+ private CyNetwork getNetworkByName(String name) {
+ for (CyNetwork net : networkManager.getNetworkSet()) {
+ if (name.equals(net.getRow(net).get(NAME,
String.class)))
+ return net;
+ }
+
+ return null;
+ }
+
+ private CyNode getNodeByName(CyNetwork net, String name) {
+ for (CyNode n : net.getNodeList()) {
+ if (name.equals(net.getRow(n).get(NAME, String.class)))
+ return n;
+ }
+
+ return null;
+ }
+
+ private CyEdge getEdgeByName(CyNetwork net, String name) {
+ for (CyEdge e : net.getEdgeList()) {
+ if (name.equals(net.getRow(e).get(NAME, String.class)))
+ return e;
+ }
+
+ return null;
+ }
+}
Added:
core3/impl/trunk/session-impl/integration-test/src/test/resources/testData/session3x/subnetworks.cys
===================================================================
(Binary files differ)
Property changes on:
core3/impl/trunk/session-impl/integration-test/src/test/resources/testData/session3x/subnetworks.cys
___________________________________________________________________
Added: svn:mime-type
+ application/octet-stream
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