X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fio%2FTCoffeeScoreFile.java;h=52751e9ad47ccff3dbcf87588d03f9d01e63abdb;hb=b122ba188c2ffcbb302809bafc02058e355643ee;hp=fc0c9131294edcd2bc5d93492724b05984cb3d55;hpb=f4766a7bbcfae845fc95923b01fa14ff83d589ff;p=jalview.git

diff --git a/src/jalview/io/TCoffeeScoreFile.java b/src/jalview/io/TCoffeeScoreFile.java
index fc0c913..52751e9 100644
--- a/src/jalview/io/TCoffeeScoreFile.java
+++ b/src/jalview/io/TCoffeeScoreFile.java
@@ -123,9 +123,10 @@ public class TCoffeeScoreFile extends AlignFile
 
   Integer fWidth;
 
-  public TCoffeeScoreFile(String inFile, DataSourceType fileSourceType)
+  public TCoffeeScoreFile(Object inFile, DataSourceType fileSourceType)
           throws IOException
   {
+    // BH 2018 allows File or String
     super(inFile, fileSourceType);
 
   }
@@ -600,7 +601,7 @@ public class TCoffeeScoreFile extends AlignFile
           annotations[j] = null;
           if (val > 0)
           {
-            System.err.println(
+            jalview.bin.Console.errPrintln(
                     "Warning: non-zero value for positional T-COFFEE score for gap at "
                             + j + " in sequence " + s.getName());
           }