From: kjvdheide <kjvanderheide@dundee.ac.uk>
Date: Fri, 2 Feb 2018 14:20:45 +0000 (+0000)
Subject: JAL-2890 minor name changes
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=b340b88bb94800eae4cdbc0b1558ca2eb4c85cfa;p=jalview.git

JAL-2890 minor name changes
---

diff --git a/src/jalview/ext/cipres/CipresJob.java b/src/jalview/ext/cipres/CipresJob.java
index d8dfd60..45e620a 100644
--- a/src/jalview/ext/cipres/CipresJob.java
+++ b/src/jalview/ext/cipres/CipresJob.java
@@ -14,9 +14,9 @@ public class CipresJob
 {
   private final CiJob job;
 
-  protected CipresJob(CiJob jobResults)
+  protected CipresJob(CiJob cipresJob)
   {
-    job = jobResults;
+    job = cipresJob;
   }
 
   public void show(boolean message)
@@ -40,18 +40,6 @@ public class CipresJob
     return job.listResults(finalResults);
   }
 
-  public void getNewickTree(boolean finalResults)
-          throws CiCipresException      {
-    Collection<CiResultFile> results = job.listResults(finalResults);
-
-    for (CiResultFile result : results)
-    {
-      System.out.println(result.getName());
-
-    }
-  
-  }
-
   public void downloadResults(File location, boolean finalResults)
           throws CiCipresException, IOException
   {
diff --git a/src/jalview/ext/cipres/CipresQueryBuilder.java b/src/jalview/ext/cipres/CipresQueryBuilder.java
index baa36d9..958cf41 100644
--- a/src/jalview/ext/cipres/CipresQueryBuilder.java
+++ b/src/jalview/ext/cipres/CipresQueryBuilder.java
@@ -200,7 +200,7 @@ public class CipresQueryBuilder
       {
         ErrorData ed = ce.getErrorData();
         System.out.println(
-                "Cipres error in submitted job, code="
+                "Cipres error while submitting job, code="
                         + ed.code + ", message=" + ed.displayMessage);
 
         // invalid parameters shouldn't be possible here but just in case.