Refactoring: rename duplicated Util classes

[jabaws.git] / runner / compbio / runner / msa / Tcoffee.java

diff --git a/runner/compbio/runner/msa/Tcoffee.java b/runner/compbio/runner/msa/Tcoffee.java
index 7108bec..e7f4988 100644 (file)
--- a/runner/compbio/runner/msa/Tcoffee.java
+++ b/runner/compbio/runner/msa/Tcoffee.java
@@ -33,7 +33,7 @@ import compbio.engine.client.PipedExecutable;
 import compbio.engine.client.SkeletalExecutable;\r
 import compbio.engine.conf.PropertyHelperManager;\r
 import compbio.metadata.ResultNotAvailableException;\r
-import compbio.runner.Util;\r
+import compbio.runner.RunnerUtil;\r
 import compbio.util.PropertyHelper;\r
 \r
 public class Tcoffee extends SkeletalExecutable<Tcoffee>\r
@@ -81,7 +81,7 @@ public class Tcoffee extends SkeletalExecutable<Tcoffee>
        public Alignment getResults(String workDirectory)\r
                        throws ResultNotAvailableException {\r
                try {\r
-                       return Util.readClustalFile(workDirectory, getOutput());\r
+                       return RunnerUtil.readClustalFile(workDirectory, getOutput());\r
                } catch (FileNotFoundException e) {\r
                        log.error(e.getMessage(), e.getCause());\r
                        throw new ResultNotAvailableException(e);\r