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JAL-2154 canonical dbsources are lowercased before matching
[jalview.git]
/
test
/
jalview
/
structure
/
StructureSelectionManagerTest.java
diff --git
a/test/jalview/structure/StructureSelectionManagerTest.java
b/test/jalview/structure/StructureSelectionManagerTest.java
index
999d158
..
baaa96b
100644
(file)
--- a/
test/jalview/structure/StructureSelectionManagerTest.java
+++ b/
test/jalview/structure/StructureSelectionManagerTest.java
@@
-29,6
+29,7
@@
import jalview.datamodel.SequenceFeature;
import jalview.datamodel.SequenceI;
import jalview.io.FormatAdapter;
import jalview.io.StructureFile;
import jalview.datamodel.SequenceI;
import jalview.io.FormatAdapter;
import jalview.io.StructureFile;
+import jalview.util.MapList;
import java.util.ArrayList;
import java.util.List;
import java.util.ArrayList;
import java.util.List;
@@
-43,7
+44,7
@@
public class StructureSelectionManagerTest
@BeforeMethod(alwaysRun = true)
public void setUp()
{
@BeforeMethod(alwaysRun = true)
public void setUp()
{
- StructureViewSettings.setShowSeqFeatures(true);
+ StructureImportSettings.setShowSeqFeatures(true);
ssm = new StructureSelectionManager();
}
ssm = new StructureSelectionManager();
}
@@
-51,7
+52,11
@@
public class StructureSelectionManagerTest
public void testRegisterMapping()
{
AlignedCodonFrame acf1 = new AlignedCodonFrame();
public void testRegisterMapping()
{
AlignedCodonFrame acf1 = new AlignedCodonFrame();
+ acf1.addMap(new Sequence("s1", "ttt"), new Sequence("p1", "p"),
+ new MapList(new int[] { 1, 3 }, new int[] { 1, 1 }, 1, 1));
AlignedCodonFrame acf2 = new AlignedCodonFrame();
AlignedCodonFrame acf2 = new AlignedCodonFrame();
+ acf2.addMap(new Sequence("s2", "ttt"), new Sequence("p2", "p"),
+ new MapList(new int[] { 1, 3 }, new int[] { 1, 1 }, 1, 1));
ssm.registerMapping(acf1);
assertEquals(1, ssm.getSequenceMappings().size());
ssm.registerMapping(acf1);
assertEquals(1, ssm.getSequenceMappings().size());
@@
-75,8
+80,14
@@
public class StructureSelectionManagerTest
public void testRegisterMappings()
{
AlignedCodonFrame acf1 = new AlignedCodonFrame();
public void testRegisterMappings()
{
AlignedCodonFrame acf1 = new AlignedCodonFrame();
+ acf1.addMap(new Sequence("s1", "ttt"), new Sequence("p1", "p"),
+ new MapList(new int[] { 1, 3 }, new int[] { 1, 1 }, 1, 1));
AlignedCodonFrame acf2 = new AlignedCodonFrame();
AlignedCodonFrame acf2 = new AlignedCodonFrame();
+ acf2.addMap(new Sequence("s2", "ttt"), new Sequence("p2", "p"),
+ new MapList(new int[] { 1, 3 }, new int[] { 1, 1 }, 1, 1));
AlignedCodonFrame acf3 = new AlignedCodonFrame();
AlignedCodonFrame acf3 = new AlignedCodonFrame();
+ acf3.addMap(new Sequence("s3", "ttt"), new Sequence("p3", "p"),
+ new MapList(new int[] { 1, 3 }, new int[] { 1, 1 }, 1, 1));
List<AlignedCodonFrame> set1 = new ArrayList<AlignedCodonFrame>();
set1.add(acf1);
List<AlignedCodonFrame> set1 = new ArrayList<AlignedCodonFrame>();
set1.add(acf1);
@@
-127,7
+138,7
@@
public class StructureSelectionManagerTest
SequenceFeature sf = pmap.getSeqs().get(0).getSequenceFeatures()[0];
assertEquals("RESNUM", sf.getType());
assertEquals("1gaq", sf.getFeatureGroup());
SequenceFeature sf = pmap.getSeqs().get(0).getSequenceFeatures()[0];
assertEquals("RESNUM", sf.getType());
assertEquals("1gaq", sf.getFeatureGroup());
- assertEquals("GLU: 19 1gaqA", sf.getDescription());
+ assertEquals("GLU:19 1gaqA", sf.getDescription());
/*
* Verify a RESNUM sequence feature in the StructureSelectionManager mapped
/*
* Verify a RESNUM sequence feature in the StructureSelectionManager mapped
@@
-137,6
+148,6
@@
public class StructureSelectionManagerTest
sf = map.sequence.getSequenceFeatures()[0];
assertEquals("RESNUM", sf.getType());
assertEquals("1gaq", sf.getFeatureGroup());
sf = map.sequence.getSequenceFeatures()[0];
assertEquals("RESNUM", sf.getType());
assertEquals("1gaq", sf.getFeatureGroup());
- assertEquals("ALA: 1 1gaqB", sf.getDescription());
+ assertEquals("ALA:1 1gaqB", sf.getDescription());
}
}
}
}