JAL-3691 automatic insertion of Locale.ROOT to toUpperCase() and toLowerCase() and...

[jalview.git] / src / jalview / analysis / GeneticCodes.java

diff --git a/src/jalview/analysis/GeneticCodes.java b/src/jalview/analysis/GeneticCodes.java
index df1dd82..8d69b0b 100644 (file)
--- a/src/jalview/analysis/GeneticCodes.java
+++ b/src/jalview/analysis/GeneticCodes.java
@@ -20,6 +20,8 @@
  */
 package jalview.analysis;
 
+import java.util.Locale;
+
 import jalview.bin.Cache;
 
 import java.io.BufferedReader;
@@ -198,13 +200,13 @@ public final class GeneticCodes
       while (line != null)
       {
         line = readLine(dataIn);
-        if (line != null && !"DNA".equals(line.toUpperCase()))
+        if (line != null && !"DNA".equals(line.toUpperCase(Locale.ROOT)))
         {
           String[] tokens = line.split("\\t");
           if (tokens.length == 2)
           {
-          ambiguityCodes.put(tokens[0].toUpperCase(),
-                  tokens[1].toUpperCase());
+          ambiguityCodes.put(tokens[0].toUpperCase(Locale.ROOT),
+                  tokens[1].toUpperCase(Locale.ROOT));
           }
           else
           {
@@ -341,13 +343,13 @@ public final class GeneticCodes
       @Override
       public String translateCanonical(String codon)
       {
-        return codons.get(codon.toUpperCase());
+        return codons.get(codon.toUpperCase(Locale.ROOT));
       }
 
       @Override
       public String translate(String codon)
       {
-        String upper = codon.toUpperCase();
+        String upper = codon.toUpperCase(Locale.ROOT);
         String peptide = translateCanonical(upper);
 
         /*