JAL-3210 Barebones gradle/buildship/eclipse. See README

[jalview.git] / test / jalview / gui / AnnotationRowFilterTest.java

diff --git a/test/jalview/gui/AnnotationRowFilterTest.java b/test/jalview/gui/AnnotationRowFilterTest.java
deleted file mode 100644 (file)
index 47bd924..0000000
--- a/test/jalview/gui/AnnotationRowFilterTest.java
+++ /dev/null
@@ -1,121 +0,0 @@
-package jalview.gui;
-
-import static org.testng.Assert.assertEquals;
-
-import jalview.bin.Cache;
-import jalview.datamodel.AlignmentAnnotation;
-import jalview.datamodel.AlignmentI;
-import jalview.datamodel.SequenceI;
-import jalview.io.DataSourceType;
-import jalview.io.FileLoader;
-
-import java.util.Vector;
-
-import org.testng.annotations.BeforeClass;
-import org.testng.annotations.Test;
-
-/**
- * Tests for methods of base class of annotation column or colour chooser
- */
-public class AnnotationRowFilterTest
-{
-  AlignFrame af;
-
-  private AnnotationRowFilter testee;
-
-  @BeforeClass(alwaysRun = true)
-  public void setUp()
-  {
-    Cache.loadProperties("test/jalview/io/testProps.jvprops");
-    Cache.setPropertyNoSave("SHOW_ANNOTATIONS",
-            Boolean.TRUE.toString());
-    Cache.setPropertyNoSave(
-            Preferences.SHOW_AUTOCALC_ABOVE, Boolean.TRUE.toString());
-    af = new FileLoader().LoadFileWaitTillLoaded("examples/uniref50.fa",
-            DataSourceType.FILE);
-    testee = new AnnotationRowFilter(af.viewport, af.alignPanel)
-    {
-      @Override
-      public void valueChanged(boolean updateAllAnnotation)
-      {
-      }
-
-      @Override
-      public void updateView()
-      {
-      }
-
-      @Override
-      public void reset()
-      {
-      }
-    };
-  }
-
-  /**
-   * Test the method that builds the drop-down list of annotations to choose
-   * from for colour by annotation or select columns by annotation
-   */
-  @Test(groups = "Functional")
-  public void testGetAnnotationItems()
-  {
-    AlignmentI al = af.getViewport().getAlignment();
-    SequenceI seq1 = al.findSequenceMatch("FER_CAPAA")[0];
-    SequenceI seq2 = al.findSequenceMatch("FER_BRANA")[0];
-
-    AlignmentAnnotation ann1 = new AlignmentAnnotation("ann1Label", "ann1",
-            null);
-    al.addAnnotation(ann1);
-    AlignmentAnnotation ann2 = new AlignmentAnnotation("Significance",
-            "ann2", null);
-    al.addAnnotation(ann2);
-    /*
-     * a second Significance alignment annotation
-     */
-    AlignmentAnnotation ann2a = new AlignmentAnnotation("Significance",
-            "ann2", null);
-    al.addAnnotation(ann2a);
-
-    AlignmentAnnotation ann3 = new AlignmentAnnotation("Jronn", "Jronn",
-            null);
-    ann3.setSequenceRef(seq1);
-    al.addAnnotation(ann3);
-    AlignmentAnnotation ann4 = new AlignmentAnnotation("Jronn", "Jronn",
-            null);
-    ann4.setSequenceRef(seq2);
-    al.addAnnotation(ann4);
-    AlignmentAnnotation ann5 = new AlignmentAnnotation("Jnet", "Jnet", null);
-    ann5.setSequenceRef(seq2);
-    al.addAnnotation(ann5);
-    /*
-     * a second Jnet annotation for FER_BRANA
-     */
-    AlignmentAnnotation ann6 = new AlignmentAnnotation("Jnet", "Jnet", null);
-    ann6.setSequenceRef(seq2);
-    al.addAnnotation(ann6);
-
-    /*
-     * drop-down items with 'Per-sequence only' not checked
-     */
-    Vector<String> items = testee.getAnnotationItems(false);
-    assertEquals(
-            items.toString(),
-            "[Conservation, Quality, Consensus, Occupancy, ann1Label, Significance, Significance_1, Jronn_FER_CAPAA, Jronn_FER_BRANA, Jnet_FER_BRANA, Jnet_FER_BRANA_2]");
-    assertEquals(testee.getAnnotationMenuLabel(ann1), "ann1Label");
-    assertEquals(testee.getAnnotationMenuLabel(ann2), "Significance");
-    assertEquals(testee.getAnnotationMenuLabel(ann2a), "Significance_1");
-    assertEquals(testee.getAnnotationMenuLabel(ann3), "Jronn_FER_CAPAA");
-    assertEquals(testee.getAnnotationMenuLabel(ann4), "Jronn_FER_BRANA");
-    assertEquals(testee.getAnnotationMenuLabel(ann5), "Jnet_FER_BRANA");
-    assertEquals(testee.getAnnotationMenuLabel(ann6), "Jnet_FER_BRANA_2");
-
-    /*
-     * drop-down items with 'Per-sequence only' checked
-     */
-    items = testee.getAnnotationItems(true);
-    assertEquals(items.toString(), "[Jronn, Jnet]");
-    // the first annotation of the type is associated with the menu item
-    assertEquals(testee.getAnnotationMenuLabel(ann3), "Jronn");
-    assertEquals(testee.getAnnotationMenuLabel(ann5), "Jnet");
-  }
-}