X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=test%2Fjalview%2Fanalysis%2FRnaTest.java;h=a8e03afb8055a080d9b901f972032f1ae09fa1e9;hb=f047ab25cc45bfc9d130f67d2c56a940751d9c91;hp=1faf3f2a85ff767931ed15526443a68728881e69;hpb=beceff8fb262b9b1c5d119855b75e5329c252a71;p=jalview.git

diff --git a/test/jalview/analysis/RnaTest.java b/test/jalview/analysis/RnaTest.java
index 1faf3f2..a8e03af 100644
--- a/test/jalview/analysis/RnaTest.java
+++ b/test/jalview/analysis/RnaTest.java
@@ -20,6 +20,8 @@
  */
 package jalview.analysis;
 
+import java.util.Locale;
+
 import static org.testng.AssertJUnit.assertEquals;
 import static org.testng.AssertJUnit.assertFalse;
 import static org.testng.AssertJUnit.assertNull;
@@ -153,8 +155,8 @@ public class RnaTest
     for (int i = 0; i <= 255; i++)
     {
       boolean isClosingChar = Rna.isClosingParenthesis((char) i);
-      boolean isClosingString = Rna.isClosingParenthesis(String
-              .valueOf((char) i));
+      boolean isClosingString = Rna
+              .isClosingParenthesis(String.valueOf((char) i));
       if ((i >= 'a' && i <= 'z') || i == ')' || i == '}' || i == ']'
               || i == '>')
       {
@@ -164,7 +166,8 @@ public class RnaTest
       else
       {
         assertFalse(String.format("close base pair %c", i), isClosingChar);
-        assertFalse(String.format("close base pair %c", i), isClosingString);
+        assertFalse(String.format("close base pair %c", i),
+                isClosingString);
       }
       assertFalse(Rna.isClosingParenthesis(String.valueOf((char) i) + " "));
     }
@@ -182,7 +185,7 @@ public class RnaTest
         char second = bases.charAt(j);
         boolean result = Rna.isCanonicalOrWobblePair(first, second);
         String pair = new String(new char[] { first, second })
-                .toUpperCase();
+                .toUpperCase(Locale.ROOT);
         if (pair.equals("AT") || pair.equals("TA") || pair.equals("AU")
                 || pair.equals("UA") || pair.equals("GC")
                 || pair.equals("CG") || pair.equals("GT")
@@ -211,7 +214,7 @@ public class RnaTest
         char second = bases.charAt(j);
         boolean result = Rna.isCanonicalPair(first, second);
         String pair = new String(new char[] { first, second })
-                .toUpperCase();
+                .toUpperCase(Locale.ROOT);
         if (pair.equals("AT") || pair.equals("TA") || pair.equals("AU")
                 || pair.equals("UA") || pair.equals("GC")
                 || pair.equals("CG"))
@@ -238,8 +241,8 @@ public class RnaTest
     for (int i = 0; i <= 255; i++)
     {
       boolean isOpeningChar = Rna.isOpeningParenthesis((char) i);
-      boolean isOpeningString = Rna.isOpeningParenthesis(String
-              .valueOf((char) i));
+      boolean isOpeningString = Rna
+              .isOpeningParenthesis(String.valueOf((char) i));
       if ((i >= 'A' && i <= 'Z') || i == '(' || i == '{' || i == '['
               || i == '<')
       {
@@ -296,8 +299,8 @@ public class RnaTest
     for (int i = 0; i <= 255; i++)
     {
       boolean isValidChar = Rna.isRnaSecondaryStructureSymbol((char) i);
-      boolean isValidString = Rna.isRnaSecondaryStructureSymbol(String
-              .valueOf((char) i));
+      boolean isValidString = Rna
+              .isRnaSecondaryStructureSymbol(String.valueOf((char) i));
       if ((i >= 'A' && i <= 'Z') || (i >= 'a' && i <= 'z') || i == '('
               || i == ')' || i == '{' || i == '}' || i == '[' || i == ']'
               || i == '<' || i == '>')
@@ -310,8 +313,8 @@ public class RnaTest
         assertFalse(String.format("close base pair %c", i), isValidChar);
         assertFalse(String.format("close base pair %c", i), isValidString);
       }
-      assertFalse(Rna.isRnaSecondaryStructureSymbol(String
-              .valueOf((char) i) + " "));
+      assertFalse(Rna.isRnaSecondaryStructureSymbol(
+              String.valueOf((char) i) + " "));
     }
   }
 
@@ -346,7 +349,7 @@ public class RnaTest
     String rna = ".([.)]..{.<}.>";
     SequenceFeature[] sfs = Rna.getHelixMap(rna);
     assertEquals(4, sfs.length);
-  
+
     /*
      * pairs are added in the order in which the closing bracket is found
      * (see testGetSimpleBPs)