X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=forester%2Fjava%2Fsrc%2Forg%2Fforester%2Farchaeopteryx%2Ftools%2FInferenceManager.java;h=e3e5e65f8f5d5df2732d90ab831dd0853b9b224e;hb=a9cc2cc5c9cda0ab49f26ccfb7a1aa30531e6ecf;hp=30db1768a243ae93dfe152bcb505a354b077b670;hpb=891cca0970ffc3f1091b405164af423353a54bea;p=jalview.git

diff --git a/forester/java/src/org/forester/archaeopteryx/tools/InferenceManager.java b/forester/java/src/org/forester/archaeopteryx/tools/InferenceManager.java
index 30db176..e3e5e65 100644
--- a/forester/java/src/org/forester/archaeopteryx/tools/InferenceManager.java
+++ b/forester/java/src/org/forester/archaeopteryx/tools/InferenceManager.java
@@ -14,10 +14,7 @@ public final class InferenceManager {
     private final File          _path_to_local_raxml;
 
     public static InferenceManager createInstance( final Configuration c ) {
-        return new InferenceManager( c.getpathToLocalMafft(),
-                                     c.getPathToLocalFastme(),
-                                     c.getPathToLocalRaxml(),
-                                     c.getPathToLocalClustalOmega() );
+        return new InferenceManager( c.getpathToLocalMafft(), c.getPathToLocalFastme(), c.getPathToLocalRaxml() );
     }
 
     public boolean canDoMsa() {
@@ -67,8 +64,7 @@ public final class InferenceManager {
 
     private InferenceManager( final File path_to_local_mafft,
                               final File path_to_local_fastme,
-                              final File path_to_local_raxml,
-                              final File path_to_local_clustalo ) {
+                              final File path_to_local_raxml ) {
         _path_to_local_mafft = createLocalPath( path_to_local_mafft, "mafft" );
         _path_to_local_fastme = createLocalPath( path_to_local_fastme, "fastme" );
         _path_to_local_raxml = createLocalPath( path_to_local_raxml, "raxml" );