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JAL-1717 updated the PDBEntry model and updated the method use for its equality test...
[jalview.git]
/
src
/
jalview
/
util
/
DBRefUtils.java
diff --git
a/src/jalview/util/DBRefUtils.java
b/src/jalview/util/DBRefUtils.java
index
9765a1a
..
123a4e1
100755
(executable)
--- a/
src/jalview/util/DBRefUtils.java
+++ b/
src/jalview/util/DBRefUtils.java
@@
-20,6
+20,11
@@
*/
package jalview.util;
*/
package jalview.util;
+import jalview.datamodel.DBRefEntry;
+import jalview.datamodel.DBRefSource;
+import jalview.datamodel.PDBEntry;
+import jalview.datamodel.SequenceI;
+
import java.util.ArrayList;
import java.util.HashMap;
import java.util.Hashtable;
import java.util.ArrayList;
import java.util.HashMap;
import java.util.Hashtable;
@@
-28,11
+33,6
@@
import java.util.Map;
import com.stevesoft.pat.Regex;
import com.stevesoft.pat.Regex;
-import jalview.datamodel.DBRefEntry;
-import jalview.datamodel.DBRefSource;
-import jalview.datamodel.PDBEntry;
-import jalview.datamodel.SequenceI;
-
public class DBRefUtils
{
private static Map<String, String> canonicalSourceNameLookup = new HashMap<String, String>();
public class DBRefUtils
{
private static Map<String, String> canonicalSourceNameLookup = new HashMap<String, String>();
@@
-450,8
+450,10
@@
public class DBRefUtils
ref = new DBRefEntry(locsrc, version, pdbid + chaincode);
PDBEntry pdbr = new PDBEntry();
pdbr.setId(pdbid);
ref = new DBRefEntry(locsrc, version, pdbid + chaincode);
PDBEntry pdbr = new PDBEntry();
pdbr.setId(pdbid);
+ pdbr.setType(PDBEntry.Type.PDB);
pdbr.setProperty(new Hashtable());
pdbr.setProperty(new Hashtable());
- pdbr.getProperty().put("CHAIN", chaincode);
+ pdbr.setChainCode(chaincode);
+ // pdbr.getProperty().put("CHAIN", chaincode);
seq.addPDBId(pdbr);
} else {
System.err.println("Malformed PDB DR line:"+acn);
seq.addPDBId(pdbr);
} else {
System.err.println("Malformed PDB DR line:"+acn);