in progress...

[jalview.git] / forester / java / src / org / forester / util / ForesterUtil.java

diff --git a/forester/java/src/org/forester/util/ForesterUtil.java b/forester/java/src/org/forester/util/ForesterUtil.java
index dddbf28..5d70578 100644 (file)
--- a/forester/java/src/org/forester/util/ForesterUtil.java
+++ b/forester/java/src/org/forester/util/ForesterUtil.java
@@ -542,15 +542,16 @@ public final class ForesterUtil {
     }
 
     final public static MolecularSequence.TYPE guessMolecularSequenceType( final String mol_seq ) {
-        if ( mol_seq.contains( "L" ) || mol_seq.contains( "I" ) || mol_seq.contains( "E" ) || mol_seq.contains( "H" )
-                || mol_seq.contains( "D" ) || mol_seq.contains( "Q" ) ) {
+        final String s = mol_seq.toUpperCase();
+        if ( s.contains( "L" ) || s.contains( "I" ) || s.contains( "E" ) || s.contains( "H" )
+                || s.contains( "D" ) || s.contains( "Q" ) ) {
             return TYPE.AA;
         }
         else {
-            if ( mol_seq.contains( "T" ) ) {
+            if ( s.contains( "T" ) ) {
                 return TYPE.DNA;
             }
-            else if ( mol_seq.contains( "U" ) ) {
+            else if ( s.contains( "U" ) ) {
                 return TYPE.RNA;
             }
         }
@@ -722,6 +723,10 @@ public final class ForesterUtil {
         }
         return null;
     }
+    
+    final public static String isWritableFile( final String s ) {
+        return isWritableFile( new File( s ) );
+    }
 
     /**
      * Helper for method "stringToColor".