From 75a43bd6a9f7a85dfbc04246540f27505622ca97 Mon Sep 17 00:00:00 2001
From: Jim Procter <jprocter@issues.jalview.org>
Date: Sun, 9 Sep 2018 14:04:28 +0100
Subject: [PATCH] JAL-3106 normalise extension before checking if it is '.jar'
 when constructing fileformat/extension name index

---
 src/jalview/io/JalviewFileChooser.java |   10 +++++-----
 src/jalview/io/JalviewFileView.java    |    7 ++++---
 2 files changed, 9 insertions(+), 8 deletions(-)

diff --git a/src/jalview/io/JalviewFileChooser.java b/src/jalview/io/JalviewFileChooser.java
index 1294e89..7a21c16 100755
--- a/src/jalview/io/JalviewFileChooser.java
+++ b/src/jalview/io/JalviewFileChooser.java
@@ -68,8 +68,8 @@ public class JalviewFileChooser extends JFileChooser
   public static JalviewFileChooser forRead(String directory,
           String selected)
   {
-    List<String> extensions = new ArrayList<String>();
-    List<String> descs = new ArrayList<String>();
+    List<String> extensions = new ArrayList<>();
+    List<String> descs = new ArrayList<>();
     for (FileFormatI format : FileFormats.getInstance().getFormats())
     {
       if (format.isReadable())
@@ -96,8 +96,8 @@ public class JalviewFileChooser extends JFileChooser
   {
     // TODO in Java 8, forRead and forWrite can be a single method
     // with a lambda expression parameter for isReadable/isWritable
-    List<String> extensions = new ArrayList<String>();
-    List<String> descs = new ArrayList<String>();
+    List<String> extensions = new ArrayList<>();
+    List<String> descs = new ArrayList<>();
     for (FileFormatI format : FileFormats.getInstance().getFormats())
     {
       if (format.isWritable())
@@ -142,7 +142,7 @@ public class JalviewFileChooser extends JFileChooser
     super(safePath(dir));
     if (extensions.length == descs.length)
     {
-      List<String[]> formats = new ArrayList<String[]>();
+      List<String[]> formats = new ArrayList<>();
       for (int i = 0; i < extensions.length; i++)
       {
         formats.add(new String[] { extensions[i], descs[i] });
diff --git a/src/jalview/io/JalviewFileView.java b/src/jalview/io/JalviewFileView.java
index b2fe587..18114f3 100755
--- a/src/jalview/io/JalviewFileView.java
+++ b/src/jalview/io/JalviewFileView.java
@@ -37,14 +37,15 @@ public class JalviewFileView extends FileView
 
   private void loadExtensions()
   {
-    extensions = new HashMap<String, String>();
+    extensions = new HashMap<>();
     for (FileFormatI ff : FileFormats.getInstance().getFormats())
     {
       String desc = ff.getName() + " file";
       String exts = ff.getExtensions();
       for (String ext : exts.split(","))
       {
-        extensions.put(ext.trim().toLowerCase(),
+        ext = ext.trim().toLowerCase();
+        extensions.put(ext,
                 desc + ("jar".equals(ext) ? " (old)" : ""));
       }
     }
@@ -124,7 +125,7 @@ public class JalviewFileView extends FileView
     {
       if (icons == null)
       {
-        icons = new HashMap<String, ImageIcon>();
+        icons = new HashMap<>();
       }
       if (!icons.containsKey(filePath))
       {
-- 
1.7.10.2