JAL-3949 Complete new abstracted logging framework in jalview.log. Updated log calls...

[jalview.git] / src / jalview / ext / so / SequenceOntology.java

diff --git a/src/jalview/ext/so/SequenceOntology.java b/src/jalview/ext/so/SequenceOntology.java
index 138aa58..14969fe 100644 (file)
--- a/src/jalview/ext/so/SequenceOntology.java
+++ b/src/jalview/ext/so/SequenceOntology.java
@@ -115,7 +115,7 @@ public class SequenceOntology implements SequenceOntologyI
         }
       }
       long elapsed = System.currentTimeMillis() - now;
-      Cache.log.info("Loaded Sequence Ontology from " + zipFile + " ("
+      Cache.info("Loaded Sequence Ontology from " + zipFile + " ("
               + elapsed + "ms)");
     } catch (Exception e)
     {
@@ -184,19 +184,19 @@ public class SequenceOntology implements SequenceOntologyI
             boolean oldTermIsObsolete = isObsolete(replaced);
             if (newTermIsObsolete && !oldTermIsObsolete)
             {
-              Cache.log.debug("Ignoring " + term.getName()
+              Cache.debug("Ignoring " + term.getName()
                       + " as obsolete and duplicated by "
                       + replaced.getName());
               term = replaced;
             }
             else if (!newTermIsObsolete && oldTermIsObsolete)
             {
-              Cache.log.debug("Ignoring " + replaced.getName()
+              Cache.debug("Ignoring " + replaced.getName()
                       + " as obsolete and duplicated by " + term.getName());
             }
             else
             {
-              Cache.log.debug("Warning: " + term.getName()
+              Cache.debug("Warning: " + term.getName()
                       + " has replaced " + replaced.getName()
                       + " for lookup of '" + description + "'");
             }
@@ -337,7 +337,7 @@ public class SequenceOntology implements SequenceOntologyI
     {
       if (!termsNotFound.contains(term))
       {
-        Cache.log.error("SO term " + term + " invalid");
+        Cache.error("SO term " + term + " invalid");
         termsNotFound.add(term);
       }
     }