Merge branch 'develop' into spike/JAL-4047/JAL-4048_columns_in_sequenceID

[jalview.git] / src / jalview / ext / ensembl / EnsemblMap.java

diff --git a/src/jalview/ext/ensembl/EnsemblMap.java b/src/jalview/ext/ensembl/EnsemblMap.java
index f2ab195..1fd9a23 100644 (file)
--- a/src/jalview/ext/ensembl/EnsemblMap.java
+++ b/src/jalview/ext/ensembl/EnsemblMap.java
@@ -157,7 +157,7 @@ public class EnsemblMap extends EnsemblRestClient
       return (parseAssemblyMappingResponse(url));
     } catch (Throwable t)
     {
-      System.out.println("Error calling " + url + ": " + t.getMessage());
+      jalview.bin.Console.outPrintln("Error calling " + url + ": " + t.getMessage());
       return null;
     }
   }
@@ -265,7 +265,7 @@ public class EnsemblMap extends EnsemblRestClient
       return null;
     } catch (Throwable t)
     {
-      System.out.println("Error calling " + url + ": " + t.getMessage());
+      jalview.bin.Console.outPrintln("Error calling " + url + ": " + t.getMessage());
       return null;
     }
   }
@@ -342,7 +342,7 @@ public class EnsemblMap extends EnsemblRestClient
         String ass = mapped.get("assembly_name").toString();
         if (assembly != null && !assembly.equals(ass))
         {
-          System.err.println(
+          jalview.bin.Console.errPrintln(
                   "EnsemblMap found multiple assemblies - can't resolve");
           return null;
         }
@@ -350,7 +350,7 @@ public class EnsemblMap extends EnsemblRestClient
         String chr = mapped.get("seq_region_name").toString();
         if (chromosome != null && !chromosome.equals(chr))
         {
-          System.err.println(
+          jalview.bin.Console.errPrintln(
                   "EnsemblMap found multiple chromosomes - can't resolve");
           return null;
         }