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Merge branch 'develop' into development/Release_2_12_Branch_JAL-4102_21126_merge
[jalview.git]
/
src
/
jalview
/
datamodel
/
SeqCigar.java
diff --git
a/src/jalview/datamodel/SeqCigar.java
b/src/jalview/datamodel/SeqCigar.java
index
34697b3
..
07a62c9
100644
(file)
--- a/
src/jalview/datamodel/SeqCigar.java
+++ b/
src/jalview/datamodel/SeqCigar.java
@@
-22,6
+22,7
@@
package jalview.datamodel;
import jalview.analysis.AlignSeq;
import jalview.analysis.SeqsetUtils;
import jalview.analysis.AlignSeq;
import jalview.analysis.SeqsetUtils;
+import jalview.analysis.SeqsetUtils.SequenceInfo;
import jalview.util.MessageManager;
import jalview.util.ShiftList;
import jalview.util.MessageManager;
import jalview.util.ShiftList;
@@
-37,7
+38,7
@@
public class SeqCigar extends CigarSimple
private SequenceI refseq = null;
private SequenceI refseq = null;
- private Hashtable seqProps;
+ private SequenceInfo seqProps;
/**
* Reference dataset sequence for the cigar string
/**
* Reference dataset sequence for the cigar string
@@
-587,7
+588,6
@@
public class SeqCigar extends CigarSimple
+ (bounds[2] == 0 ? -1 : bounds[2]));
seqs[i].setDatasetSequence(ref);
seqs[i].setDescription(ref.getDescription());
+ (bounds[2] == 0 ? -1 : bounds[2]));
seqs[i].setDatasetSequence(ref);
seqs[i].setDescription(ref.getDescription());
- SeqsetUtils.SeqCharacterUnhash(seqs[i],alseqs[i].seqProps,true,true);
}
if (segments != null)
{
}
if (segments != null)
{