X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=test%2Fjalview%2Fschemes%2FColourSchemesTest.java;h=0184f128bf5c345e3d3f4051bad817d246588caa;hb=refs%2Fheads%2Fimprovement%2FJAL-3847_some_attempts_to_set_gradle_and_groovy_versions;hp=4618ed7be9b4bb605ccbb9fe6cd5b31620c86ef1;hpb=b0832234b2a89510d715951d94ae213e449ca6b2;p=jalview.git
diff --git a/test/jalview/schemes/ColourSchemesTest.java b/test/jalview/schemes/ColourSchemesTest.java
index 4618ed7..0184f12 100644
--- a/test/jalview/schemes/ColourSchemesTest.java
+++ b/test/jalview/schemes/ColourSchemesTest.java
@@ -1,3 +1,23 @@
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * Jalview 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 General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see .
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
package jalview.schemes;
import static org.testng.Assert.assertEquals;
@@ -5,6 +25,15 @@ import static org.testng.Assert.assertFalse;
import static org.testng.Assert.assertSame;
import static org.testng.Assert.assertTrue;
+import java.awt.Color;
+import java.util.Iterator;
+import java.util.Map;
+
+import org.testng.annotations.AfterClass;
+import org.testng.annotations.BeforeClass;
+import org.testng.annotations.Test;
+
+import jalview.api.AlignViewportI;
import jalview.bin.Cache;
import jalview.bin.Jalview;
import jalview.datamodel.AnnotatedCollectionI;
@@ -17,14 +46,6 @@ import jalview.io.DataSourceType;
import jalview.io.FileLoader;
import jalview.schemes.ClustalxColourScheme.ClustalColour;
-import java.awt.Color;
-import java.util.Iterator;
-import java.util.Map;
-
-import org.testng.annotations.AfterClass;
-import org.testng.annotations.BeforeClass;
-import org.testng.annotations.Test;
-
public class ColourSchemesTest
{
/*
@@ -54,15 +75,15 @@ public class ColourSchemesTest
}
@Override
- public ColourSchemeI getInstance(AnnotatedCollectionI sg,
- Map hiddenRepSequences)
+ public ColourSchemeI getInstance(AlignViewportI view,
+ AnnotatedCollectionI sg)
{
- final ColourSchemeI cs1 = ColourSchemes.getInstance()
- .getColourScheme(JalviewColourScheme.Taylor.toString(),
- (AnnotatedCollectionI) null);
- final ColourSchemeI cs2 = ColourSchemes.getInstance()
- .getColourScheme(JalviewColourScheme.Zappo.toString(),
- (AnnotatedCollectionI) null);
+ final ColourSchemeI cs1 = ColourSchemes.getInstance().getColourScheme(
+ JalviewColourScheme.Taylor.toString(),
+ (AnnotatedCollectionI) null);
+ final ColourSchemeI cs2 = ColourSchemes.getInstance().getColourScheme(
+ JalviewColourScheme.Zappo.toString(),
+ (AnnotatedCollectionI) null);
return new Stripy(cs1, cs2);
}
@@ -85,7 +106,7 @@ public class ColourSchemesTest
return "stripy";
}
};
-
+
/*
* a colour scheme that is Clustal but using AWT colour equivalents
*/
@@ -144,10 +165,10 @@ public class ColourSchemesTest
}
@Override
- public ColourSchemeI getInstance(AnnotatedCollectionI sg,
- Map hiddenRepSequences)
+ public ColourSchemeI getInstance(AlignViewportI view,
+ AnnotatedCollectionI sg)
{
- return new MyClustal(sg, hiddenRepSequences);
+ return new MyClustal(sg, view.getHiddenRepSequences());
}
@Override
@@ -171,7 +192,8 @@ public class ColourSchemesTest
@AfterClass(alwaysRun = true)
public static void tearDownAfterClass() throws Exception
{
- Desktop.instance.closeAll_actionPerformed(null);
+ if (Desktop.instance != null)
+ Desktop.instance.closeAll_actionPerformed(null);
}
@Test(groups = "Functional")
@@ -182,7 +204,8 @@ public class ColourSchemesTest
* in the order in which they are declared in the JalviewColourScheme enum
* (this also determines their order in Colour menus)
*/
- Iterator schemes = ColourSchemes.getInstance().getColourSchemes().iterator();
+ Iterator schemes = ColourSchemes.getInstance()
+ .getColourSchemes().iterator();
JalviewColourScheme[] jalviewSchemes = JalviewColourScheme.values();
int i = 0;
while (schemes.hasNext() && i < jalviewSchemes.length)
@@ -209,7 +232,7 @@ public class ColourSchemesTest
}
af.closeMenuItem_actionPerformed(true);
}
-
+
@Test(groups = "Functional")
public void testRegisterColourScheme()
{
@@ -228,9 +251,9 @@ public class ColourSchemesTest
* set and check Taylor colours
*/
af.changeColour_actionPerformed(JalviewColourScheme.Taylor.toString());
- Color taylor1 = sr.getResidueBoxColour(seq, 88); // E 255,0,102
- Color taylor2 = sr.getResidueBoxColour(seq, 89); // A 204,255,0
- Color taylor3 = sr.getResidueBoxColour(seq, 90); // G 255,153,0
+ Color taylor1 = sr.getResidueColour(seq, 88, null); // E 255,0,102
+ Color taylor2 = sr.getResidueColour(seq, 89, null); // A 204,255,0
+ Color taylor3 = sr.getResidueColour(seq, 90, null); // G 255,153,0
assertEquals(taylor1, new Color(255, 0, 102));
assertEquals(taylor2, new Color(204, 255, 0));
assertEquals(taylor3, new Color(255, 153, 0));
@@ -239,9 +262,9 @@ public class ColourSchemesTest
* set and check Zappo colours
*/
af.changeColour_actionPerformed(JalviewColourScheme.Zappo.toString());
- Color zappo1 = sr.getResidueBoxColour(seq, 88); // E red
- Color zappo2 = sr.getResidueBoxColour(seq, 89); // A pink
- Color zappo3 = sr.getResidueBoxColour(seq, 90); // G magenta
+ Color zappo1 = sr.getResidueColour(seq, 88, null); // E red
+ Color zappo2 = sr.getResidueColour(seq, 89, null); // A pink
+ Color zappo3 = sr.getResidueColour(seq, 90, null); // G magenta
assertEquals(zappo1, Color.red);
assertEquals(zappo2, Color.pink);
assertEquals(zappo3, Color.magenta);
@@ -250,9 +273,9 @@ public class ColourSchemesTest
* set 'stripy' colours - odd columns are Taylor and even are Zappo
*/
af.changeColour_actionPerformed("stripy");
- Color stripy1 = sr.getResidueBoxColour(seq, 88);
- Color stripy2 = sr.getResidueBoxColour(seq, 89);
- Color stripy3 = sr.getResidueBoxColour(seq, 90);
+ Color stripy1 = sr.getResidueColour(seq, 88, null);
+ Color stripy2 = sr.getResidueColour(seq, 89, null);
+ Color stripy3 = sr.getResidueColour(seq, 90, null);
assertEquals(stripy1, zappo1);
assertEquals(stripy2, taylor2);
assertEquals(stripy3, zappo3);
@@ -261,9 +284,9 @@ public class ColourSchemesTest
* set and check Clustal colours
*/
af.changeColour_actionPerformed(JalviewColourScheme.Clustal.toString());
- Color clustal1 = sr.getResidueBoxColour(seq, 88);
- Color clustal2 = sr.getResidueBoxColour(seq, 89);
- Color clustal3 = sr.getResidueBoxColour(seq, 90);
+ Color clustal1 = sr.getResidueColour(seq, 88, null);
+ Color clustal2 = sr.getResidueColour(seq, 89, null);
+ Color clustal3 = sr.getResidueColour(seq, 90, null);
assertEquals(clustal1, ClustalColour.MAGENTA.colour);
assertEquals(clustal2, ClustalColour.BLUE.colour);
assertEquals(clustal3, ClustalColour.ORANGE.colour);
@@ -272,9 +295,9 @@ public class ColourSchemesTest
* set 'MyClustal' colours - uses AWT colour equivalents
*/
af.changeColour_actionPerformed("MyClustal");
- Color myclustal1 = sr.getResidueBoxColour(seq, 88);
- Color myclustal2 = sr.getResidueBoxColour(seq, 89);
- Color myclustal3 = sr.getResidueBoxColour(seq, 90);
+ Color myclustal1 = sr.getResidueColour(seq, 88, null);
+ Color myclustal2 = sr.getResidueColour(seq, 89, null);
+ Color myclustal3 = sr.getResidueColour(seq, 90, null);
assertEquals(myclustal1, Color.MAGENTA);
assertEquals(myclustal2, Color.BLUE);
assertEquals(myclustal3, Color.ORANGE);