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JAL-629 --initsubstitutions as a bootstrap arg, new tests
[jalview.git]
/
src
/
jalview
/
util
/
DBRefUtils.java
diff --git
a/src/jalview/util/DBRefUtils.java
b/src/jalview/util/DBRefUtils.java
index
5337852
..
98d5e11
100755
(executable)
--- a/
src/jalview/util/DBRefUtils.java
+++ b/
src/jalview/util/DBRefUtils.java
@@
-20,17
+20,17
@@
*/
package jalview.util;
*/
package jalview.util;
-import java.util.Locale;
-
import java.util.ArrayList;
import java.util.BitSet;
import java.util.HashMap;
import java.util.HashSet;
import java.util.List;
import java.util.ArrayList;
import java.util.BitSet;
import java.util.HashMap;
import java.util.HashSet;
import java.util.List;
+import java.util.Locale;
import java.util.Map;
import com.stevesoft.pat.Regex;
import java.util.Map;
import com.stevesoft.pat.Regex;
+import jalview.bin.Console;
import jalview.datamodel.DBRefEntry;
import jalview.datamodel.DBRefSource;
import jalview.datamodel.Mapping;
import jalview.datamodel.DBRefEntry;
import jalview.datamodel.DBRefSource;
import jalview.datamodel.Mapping;
@@
-805,15
+805,18
@@
public class DBRefUtils
}
// and promote - not that version must be non-null here,
// as p must have passed isPrimaryCandidate()
}
// and promote - not that version must be non-null here,
// as p must have passed isPrimaryCandidate()
- cand.setVersion(p.getVersion() + " (promoted)");
+ cand.setVersion(cand.getVersion() + " (promoted)");
bsSelect.clear(ic);
// selfs.remove(cand);
// toPromote.add(cand);
if (!cand.isPrimaryCandidate())
{
bsSelect.clear(ic);
// selfs.remove(cand);
// toPromote.add(cand);
if (!cand.isPrimaryCandidate())
{
- System.out.println(
- "Warning: Couldn't promote dbref " + cand.toString()
- + " for sequence " + sequence.toString());
+ if (Console.isDebugEnabled())
+ {
+ Console.debug(
+ "Warning: Couldn't promote dbref " + cand.toString()
+ + " for sequence " + sequence.toString());
+ }
}
}
}
}
}
}