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saves and loads annotations with seqrefs
[jalview.git]
/
src
/
jalview
/
gui
/
Jalview2XML.java
diff --git
a/src/jalview/gui/Jalview2XML.java
b/src/jalview/gui/Jalview2XML.java
index
d652da2
..
6384125
100755
(executable)
--- a/
src/jalview/gui/Jalview2XML.java
+++ b/
src/jalview/gui/Jalview2XML.java
@@
-316,6
+316,12
@@
public class Jalview2XML
\r
Annotation an = new Annotation();
\r
an.setDescription(aa[i].description);
\r
\r
Annotation an = new Annotation();
\r
an.setDescription(aa[i].description);
\r
+
\r
+ if(aa[i].sequenceRef!=null)
\r
+ {
\r
+ an.setSequenceRef(aa[i].sequenceRef.getName());
\r
+ }
\r
+
\r
if(aa[i].graph>0)
\r
{
\r
an.setGraph(true);
\r
if(aa[i].graph>0)
\r
{
\r
an.setGraph(true);
\r
@@
-816,6
+822,14
@@
public class Jalview2XML
an[i].getDescription(), anot);
\r
}
\r
\r
an[i].getDescription(), anot);
\r
}
\r
\r
+ if(an[i].getSequenceRef()!=null)
\r
+ {
\r
+ jaa.createSequenceMapping(
\r
+ al.findName(an[i].getSequenceRef()), 1
\r
+ );
\r
+ al.findName(an[i].getSequenceRef()).addAlignmentAnnotation(jaa);
\r
+ }
\r
+
\r
al.addAnnotation(jaa);
\r
}
\r
}
\r
al.addAnnotation(jaa);
\r
}
\r
}
\r