*/
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.Locale;
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;
}
else
{
- System.err.println("Malformed PDB DR line:" + acn);
+ jalview.bin.Console.errPrintln("Malformed PDB DR line:" + acn);
}
}
else
}
// 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())
{
- 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());
+ }
}
}
}