Merge branch 'develop' into update_212_Dec_merge_with_21125_chamges

[jalview.git] / src / jalview / analysis / SeqsetUtils.java

diff --git a/src/jalview/analysis/SeqsetUtils.java b/src/jalview/analysis/SeqsetUtils.java
index e2ed9b4..5a246f8 100755 (executable)
--- a/src/jalview/analysis/SeqsetUtils.java
+++ b/src/jalview/analysis/SeqsetUtils.java
@@ -21,6 +21,7 @@
 package jalview.analysis;
 
 import jalview.bin.Cache;
+import jalview.bin.Console;
 import jalview.datamodel.AlignmentAnnotation;
 import jalview.datamodel.HiddenMarkovModel;
 import jalview.datamodel.PDBEntry;
@@ -121,7 +122,7 @@ public class SeqsetUtils
     {
       if (sqinfo.features.isPresent())
       {
-        Cache.log.warn("Setting dataset sequence for a sequence which has " +
+        Console.warn("Setting dataset sequence for a sequence which has " +
             "sequence features. Dataset sequence features will not be visible.");
         assert false;
       }
@@ -245,14 +246,14 @@ public class SeqsetUtils
         {
           if (!quiet)
           {
-            Cache.log.warn(format("Can't find '%s' in uniquified alignment",
+            Console.warn(format("Can't find '%s' in uniquified alignment",
                 key));
           }
         }
       } catch (ClassCastException ccastex) {
         if (!quiet)
         {
-          Cache.log.error("Unexpected object in SeqSet map : "+ key.getClass());
+          Console.error("Unexpected object in SeqSet map : "+ key.getClass());
         }
       }
     }
@@ -265,7 +266,7 @@ public class SeqsetUtils
       {
         sb.append(", " + i.nextElement().getName());
       }
-      Cache.log.warn(sb.toString());
+      Console.warn(sb.toString());
       return false;
     }