JAL-4366 JAL-728 simple hack to use 3di matrix when gecos-3di is enabled

[jalview.git] / src / jalview / ws / jws2 / JabaWsServerQuery.java

diff --git a/src/jalview/ws/jws2/JabaWsServerQuery.java b/src/jalview/ws/jws2/JabaWsServerQuery.java
index 5831df8..84aa1a6 100644 (file)
--- a/src/jalview/ws/jws2/JabaWsServerQuery.java
+++ b/src/jalview/ws/jws2/JabaWsServerQuery.java
@@ -117,7 +117,7 @@ public class JabaWsServerQuery implements Runnable
           registry = Jws2Client.connectToRegistry(jwsserver);
           if (registry != null)
           {
-            // System.err.println("Test Services Output\n"
+            // jalview.bin.Console.errPrintln("Test Services Output\n"
             // + registry.testAllServices());
             // TODO: enumerate services and test those that haven't been tested
             // in the last n-days/hours/etc.
@@ -126,23 +126,25 @@ public class JabaWsServerQuery implements Runnable
             srv_set = registry.getSupportedServices();
 
             // dan test
-            System.out.println(
+            jalview.bin.Console.outPrintln(
                     "registry.getSupportedServices: " + srv_set.toString());
 
             svccategories = registry.getServiceCategories();
 
             // dan test
-            // System.out.println("registry.getServiceCategories: " +
+            // jalview.bin.Console.outPrintln("registry.getServiceCategories: "
+            // +
             // svccategories.toString());
 
           }
         } catch (Exception ex)
         {
-          System.err.println("Exception whilst trying to get at registry:");
+          jalview.bin.Console.errPrintln(
+                  "Exception whilst trying to get at registry:");
           ex.printStackTrace();
           // if that failed, then we are probably working with a JABAWS1 server.
           // in that case, look for each service endpoint
-          System.err.println("JWS2 Discoverer: " + jwsserver
+          jalview.bin.Console.errPrintln("JWS2 Discoverer: " + jwsserver
                   + " is a JABAWS1 server. Using hardwired list.");
           for (Services srv : JABAWS1SERVERS)
           {
@@ -169,8 +171,9 @@ public class JabaWsServerQuery implements Runnable
               service = Jws2Client.connect(jwsserver, srv);
             } catch (Exception e)
             {
-              System.err.println("Jws2 Discoverer: Problem on " + jwsserver
-                      + " with service " + srv + ":\n" + e.getMessage());
+              jalview.bin.Console.errPrintln("Jws2 Discoverer: Problem on "
+                      + jwsserver + " with service " + srv + ":\n"
+                      + e.getMessage());
               if (!(e instanceof javax.xml.ws.WebServiceException))
               {
                 e.printStackTrace();
@@ -245,12 +248,12 @@ public class JabaWsServerQuery implements Runnable
         result = true;
       } catch (MalformedURLException e)
       {
-        System.err.println("Invalid server URL: " + server);
+        jalview.bin.Console.errPrintln("Invalid server URL: " + server);
         result = false;
       } catch (IOException e)
       {
-        System.err.println("Error connecting to server: " + server + ": "
-                + e.toString());
+        jalview.bin.Console.errPrintln("Error connecting to server: "
+                + server + ": " + e.toString());
         result = false;
       }
     }