Refactoring: rename duplicated Util classes

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

diff --git a/runner/compbio/runner/msa/Muscle.java b/runner/compbio/runner/msa/Muscle.java
index 20c76ac..8576a04 100644 (file)
--- a/runner/compbio/runner/msa/Muscle.java
+++ b/runner/compbio/runner/msa/Muscle.java
@@ -31,7 +31,7 @@ import compbio.data.sequence.Alignment;
 import compbio.data.sequence.UnknownFileFormatException;\r
 import compbio.engine.client.SkeletalExecutable;\r
 import compbio.metadata.ResultNotAvailableException;\r
-import compbio.runner.Util;\r
+import compbio.runner.RunnerUtil;\r
 \r
 public class Muscle extends SkeletalExecutable<Muscle> {\r
 \r
@@ -83,7 +83,7 @@ public class Muscle extends SkeletalExecutable<Muscle> {
        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