X-Git-Url: http://source.jalview.org/gitweb/?p=jalview.git;a=blobdiff_plain;f=test%2Fjalview%2Fdatamodel%2FHMMNodeTest.java;fp=test%2Fjalview%2Fdatamodel%2FHMMNodeTest.java;h=f2aef06193ac35b0d2d37860b5d4eeb03067ccf9;hp=0000000000000000000000000000000000000000;hb=c794c5033adeee182b03a5ea92c0a7495a29661f;hpb=e1dbbc5edc07f65706eeb1dda9f4c9bcdee9d3a5

diff --git a/test/jalview/datamodel/HMMNodeTest.java b/test/jalview/datamodel/HMMNodeTest.java
new file mode 100644
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+++ b/test/jalview/datamodel/HMMNodeTest.java
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+package jalview.datamodel;
+
+import static org.testng.Assert.assertEquals;
+
+import jalview.io.DataSourceType;
+import jalview.io.FileParse;
+import jalview.io.HMMFile;
+
+import java.io.IOException;
+import java.net.MalformedURLException;
+
+import org.testng.annotations.BeforeClass;
+import org.testng.annotations.Test;
+
+public class HMMNodeTest
+{
+  private HiddenMarkovModel hmm;
+
+  @BeforeClass(alwaysRun = true)
+  public void setUp() throws MalformedURLException, IOException
+  {
+    /*
+     * load hmm model of a Kinase domain to a HiddenMarkovModel
+     */
+    HMMFile file = new HMMFile(new FileParse(
+            "test/jalview/io/test_PKinase_hmm.txt", DataSourceType.FILE));
+    hmm = file.getHMM();
+  }
+
+  @Test(groups="Functional")
+  public void testGetMaxMatchEmissionIdex()
+  {
+    assertEquals(hmm.getAlphabetType(), "amino");
+    String symbols = hmm.getSymbols();
+
+    assertEquals(hmm.getNode(1).getMaxMatchEmissionIndex(),
+            symbols.indexOf('Y'));
+
+    assertEquals(hmm.getNode(17).getMaxMatchEmissionIndex(),
+            symbols.indexOf('K'));
+  }
+}