Fix patch application WRT windows line endings.

Previously the result of an application would have been \r\r\n in the
case of windows line endings, as RawText does not touch the \r, and
ApplyCommand adds "\r\n" if this is the ending of the first line in the
target file. Only always adding \n should be ok, since \r\n would be the
result if the file and the patch include windows line endings.

Also add according test.

Change-Id: Ibd4c4948d81bd1c511ecf5fd6c906444930d236e

org.eclipse.jgit.test/tst-rsrc/org/eclipse/jgit/diff/NL1.patch

@@ -0,0 +1,10 @@
+diff --git a/NL1 b/NL1
+index 68abad7..b14088c 100644
+--- a/NL1
++++ b/NL1
+@@ -1,4 +1,4 @@
+ a
+-b
++d
+ c
+ 

org.eclipse.jgit.test/tst-rsrc/org/eclipse/jgit/diff/NL1_PostImage

@@ -0,0 +1,4 @@
+a
+d
+c
+

org.eclipse.jgit.test/tst-rsrc/org/eclipse/jgit/diff/NL1_PreImage

@@ -0,0 +1,4 @@
+a
+b
+c
+

org.eclipse.jgit.test/tst/org/eclipse/jgit/api/ApplyCommandTest.java

@@ -178,6 +178,16 @@ public class ApplyCommandTest extends RepositoryTestCase {
 				b.getString(0, b.size(), false));
 	}
 
+	@Test
+	public void testModifyNL1() throws Exception {
+		ApplyResult result = init("NL1");
+		assertEquals(1, result.getUpdatedFiles().size());
+		assertEquals(new File(db.getWorkTree(), "NL1"), result
+				.getUpdatedFiles().get(0));
+		checkFile(new File(db.getWorkTree(), "NL1"),
+				b.getString(0, b.size(), false));
+	}
+
 	private static byte[] readFile(final String patchFile) throws IOException {
 		final InputStream in = DiffFormatterReflowTest.class
 				.getResourceAsStream(patchFile);

org.eclipse.jgit/src/org/eclipse/jgit/api/ApplyCommand.java

@@ -238,13 +238,10 @@ public class ApplyCommand extends GitCommand<ApplyResult> {
 		if (!isChanged(oldLines, newLines))
 			return; // don't touch the file
 		StringBuilder sb = new StringBuilder();
-		final String eol = rt.size() == 0
-				|| (rt.size() == 1 && rt.isMissingNewlineAtEnd()) ? "\n" : rt //$NON-NLS-1$
-				.getLineDelimiter();
 		for (String l : newLines) {
-			sb.append(l);
-			if (eol != null)
-				sb.append(eol);
+			// don't bother handling line endings - if it was windows, the \r is
+			// still there!
+			sb.append(l).append('\n');
 		}
 		sb.deleteCharAt(sb.length() - 1);
 		FileWriter fw = new FileWriter(f);
@@ -252,7 +249,7 @@ public class ApplyCommand extends GitCommand<ApplyResult> {
 		fw.close();
 	}
 
-	private boolean isChanged(List<String> ol, List<String> nl) {
+	private static boolean isChanged(List<String> ol, List<String> nl) {
 		if (ol.size() != nl.size())
 			return true;
 		for (int i = 0; i < ol.size(); i++)