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JAL-2154 poke JSeq start/end into Vamsas sequence
[jalview.git]
/
src
/
jalview
/
gui
/
Jalview2XML.java
diff --git
a/src/jalview/gui/Jalview2XML.java
b/src/jalview/gui/Jalview2XML.java
index
1633a5d
..
3f38082
100644
(file)
--- a/
src/jalview/gui/Jalview2XML.java
+++ b/
src/jalview/gui/Jalview2XML.java
@@
-2678,9
+2678,12
@@
public class Jalview2XML
{
String seqId = jseqs[i].getId();
{
String seqId = jseqs[i].getId();
- if (seqRefIds.get(seqId) != null)
+ SequenceI tmpSeq = seqRefIds.get(seqId);
+ if (tmpSeq != null)
{
{
- tmpseqs.add(seqRefIds.get(seqId));
+ tmpSeq.setStart(jseqs[i].getStart());
+ tmpSeq.setEnd(jseqs[i].getEnd());
+ tmpseqs.add(tmpSeq);
multipleView = true;
}
else
multipleView = true;
}
else
@@
-2708,7
+2711,7
@@
public class Jalview2XML
hiddenSeqs = new ArrayList<SequenceI>();
}
hiddenSeqs = new ArrayList<SequenceI>();
}
- hiddenSeqs.add(seqRefIds.get(seqId));
+ hiddenSeqs.add(tmpSeq);
}
}
}
}