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Merge branch 'develop' into bug/JAL-1803_JAL-2157
[jalview.git]
/
src
/
jalview
/
datamodel
/
xdb
/
embl
/
EmblEntry.java
diff --git
a/src/jalview/datamodel/xdb/embl/EmblEntry.java
b/src/jalview/datamodel/xdb/embl/EmblEntry.java
index
06e929d
..
3ba36ca
100644
(file)
--- a/
src/jalview/datamodel/xdb/embl/EmblEntry.java
+++ b/
src/jalview/datamodel/xdb/embl/EmblEntry.java
@@
-195,7
+195,6
@@
public class EmblEntry
DBRefEntry retrievedref = new DBRefEntry(sourceDb,
getSequenceVersion(), accession);
dna.addDBRef(retrievedref);
DBRefEntry retrievedref = new DBRefEntry(sourceDb,
getSequenceVersion(), accession);
dna.addDBRef(retrievedref);
- dna.setSourceDBRef(retrievedref);
// add map to indicate the sequence is a valid coordinate frame for the
// dbref
retrievedref.setMap(new Mapping(null, new int[] { 1, dna.getLength() },
// add map to indicate the sequence is a valid coordinate frame for the
// dbref
retrievedref.setMap(new Mapping(null, new int[] { 1, dna.getLength() },
@@
-504,7
+503,6
@@
public class EmblEntry
dnaToProteinMapping.setTo(proteinSeq);
dnaToProteinMapping.setMappedFromId(proteinId);
proteinSeq.addDBRef(proteinDbRef);
dnaToProteinMapping.setTo(proteinSeq);
dnaToProteinMapping.setMappedFromId(proteinId);
proteinSeq.addDBRef(proteinDbRef);
- proteinSeq.setSourceDBRef(proteinDbRef);
ref.setMap(dnaToProteinMapping);
}
hasUniprotDbref = true;
ref.setMap(dnaToProteinMapping);
}
hasUniprotDbref = true;
@@
-549,7
+547,6
@@
public class EmblEntry
DBRefSource.EMBLCDSProduct, getSequenceVersion(), proteinId);
}
product.addDBRef(proteinToEmblProteinRef);
DBRefSource.EMBLCDSProduct, getSequenceVersion(), proteinId);
}
product.addDBRef(proteinToEmblProteinRef);
- product.setSourceDBRef(proteinToEmblProteinRef);
if (dnaToProteinMapping != null
&& dnaToProteinMapping.getTo() != null)
if (dnaToProteinMapping != null
&& dnaToProteinMapping.getTo() != null)