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JAL-2011 adjust method to fix failing unit test
[jalview.git]
/
test
/
jalview
/
analysis
/
AlignmentUtilsTests.java
diff --git
a/test/jalview/analysis/AlignmentUtilsTests.java
b/test/jalview/analysis/AlignmentUtilsTests.java
index
7661c5d
..
22bb680
100644
(file)
--- a/
test/jalview/analysis/AlignmentUtilsTests.java
+++ b/
test/jalview/analysis/AlignmentUtilsTests.java
@@
-2449,8
+2449,9
@@
public class AlignmentUtilsTests
{
SequenceI dna1 = new Sequence("dna1", "cccGGGTTTaaa");
SequenceI dna2 = new Sequence("dna2", "CCCgggtttAAA");
{
SequenceI dna1 = new Sequence("dna1", "cccGGGTTTaaa");
SequenceI dna2 = new Sequence("dna2", "CCCgggtttAAA");
- SequenceI as1 = dna1.deriveSequence(), as2 = dna1.deriveSequence()
- .getSubSequence(3, 7), as3 = dna2.deriveSequence();
+ SequenceI as1 = dna1.deriveSequence();
+ SequenceI as2 = dna1.deriveSequence().getSubSequence(3, 7);
+ SequenceI as3 = dna2.deriveSequence();
as1.insertCharAt(6, 5, '-');
String s_as1 = as1.getSequenceAsString();
as2.insertCharAt(6, 5, '-');
as1.insertCharAt(6, 5, '-');
String s_as1 = as1.getSequenceAsString();
as2.insertCharAt(6, 5, '-');
@@
-2461,8
+2462,9
@@
public class AlignmentUtilsTests
// why do we need to cast this still ?
((Alignment) aligned).createDatasetAlignment();
// why do we need to cast this still ?
((Alignment) aligned).createDatasetAlignment();
- SequenceI uas1 = dna1.deriveSequence(), uas2 = dna1.deriveSequence()
- .getSubSequence(3, 7), uas3 = dna2.deriveSequence();
+ SequenceI uas1 = dna1.deriveSequence();
+ SequenceI uas2 = dna1.deriveSequence().getSubSequence(3, 7);
+ SequenceI uas3 = dna2.deriveSequence();
AlignmentI tobealigned = new Alignment(new SequenceI[] { uas1, uas2,
uas3 });
((Alignment) tobealigned).createDatasetAlignment();
AlignmentI tobealigned = new Alignment(new SequenceI[] { uas1, uas2,
uas3 });
((Alignment) tobealigned).createDatasetAlignment();