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JAL-3700 JAL-3748 use AlignedCodonFrame.covers(seq,true) to select the protein that...
[jalview.git]
/
src
/
jalview
/
datamodel
/
AlignedCodonFrame.java
diff --git
a/src/jalview/datamodel/AlignedCodonFrame.java
b/src/jalview/datamodel/AlignedCodonFrame.java
index
9fa11cc
..
fbc8a61
100644
(file)
--- a/
src/jalview/datamodel/AlignedCodonFrame.java
+++ b/
src/jalview/datamodel/AlignedCodonFrame.java
@@
-464,8
+464,7
@@
public class AlignedCodonFrame
{
for (SequenceI sourceAligned : al.getSequences())
{
{
for (SequenceI sourceAligned : al.getSequences())
{
- if (ssm.mapping.to == sourceAligned.getDatasetSequence()
- || ssm.mapping.to == sourceAligned)
+ if (ssm.covers(sourceAligned,true))
{
return sourceAligned;
}
{
return sourceAligned;
}
@@
-483,7
+482,7
@@
public class AlignedCodonFrame
{
for (SequenceI sourceAligned : al.getSequences())
{
{
for (SequenceI sourceAligned : al.getSequences())
{
- if (ssm.fromSeq == sourceAligned.getDatasetSequence())
+ if (ssm.covers(sourceAligned,true))
{
return sourceAligned;
}
{
return sourceAligned;
}