Fix handling of file/folder conflicts during a checkout

JGit was not handling certain file/folder conflicts during a checkout
correctly. This was reported by Axel Richard in
http://dev.eclipse.org/mhonarc/lists/jgit-dev/msg02358.html.
This commit fixes this problem.

Still JGit behaves intentionally different than native git.
If HEAD contains a tree, and workingtree, Index and Merge contain a file
with same content ... then JGit allows a conflict free checkout of
Merge. Native git always complains that it doesn't want to overwrite
local changes. But there is no need to update the working tree because
Index and Merge are already equal.

A shell script which shows how native git behaves can be found here.
https://gist.github.com/chalstrick/7694959#file-gistfile1-sh

Change-Id: Ifd6a68974d61cd4fa23bc575f3a40773db66cafc
Signed-off-by: Christian Halstrick <christian.halstrick@sap.com>

org.eclipse.jgit.test/tst/org/eclipse/jgit/lib/DirCacheCheckoutTest.java

@@ -467,7 +467,9 @@ public class DirCacheCheckoutTest extends RepositoryTestCase {
 	 *3    D        F       D                 Y       N       N           Keep
 	 *4    D        F       D                 N       N       N           Conflict
 	 *5    D        F       F       Y         N       N       Y           Keep
+	 *5b   D        F       F       Y         N       N       N           Conflict
 	 *6    D        F       F       N         N       N       Y           Keep
+	 *6b   D        F       F       N         N       N       N           Conflict
 	 *7    F        D       F       Y         Y       N       N           Update
 	 *8    F        D       F       N         Y       N       N           Conflict
 	 *9    F        D       F       Y         N       N       N           Update
@@ -540,7 +542,17 @@ public class DirCacheCheckoutTest extends RepositoryTestCase {
 		// 5
 		doit(mk("DF/DF"), mk("DF"), mk("DF"));
 		assertRemoved("DF/DF");
+		assertEquals(0, dco.getConflicts().size());
+		assertEquals(0, dco.getUpdated().size());
+	}
 
+	@Test
+	public void testDirectoryFileConflicts_5b() throws Exception {
+		// 5
+		doit(mk("DF/DF"), mkmap("DF", "different"), mk("DF"));
+		assertRemoved("DF/DF");
+		assertConflict("DF");
+		assertEquals(0, dco.getUpdated().size());
 	}
 
 	@Test
@@ -550,6 +562,19 @@ public class DirCacheCheckoutTest extends RepositoryTestCase {
 		writeTrashFile("DF", "different");
 		go();
 		assertRemoved("DF/DF");
+		assertEquals(0, dco.getConflicts().size());
+		assertEquals(0, dco.getUpdated().size());
+	}
+
+	@Test
+	public void testDirectoryFileConflicts_6b() throws Exception {
+		// 6
+		setupCase(mk("DF/DF"), mk("DF"), mkmap("DF", "different"));
+		writeTrashFile("DF", "again different");
+		go();
+		assertRemoved("DF/DF");
+		assertConflict("DF");
+		assertEquals(0, dco.getUpdated().size());
 	}
 
 	@Test

org.eclipse.jgit/src/org/eclipse/jgit/dircache/DirCacheCheckout.java

@@ -555,7 +555,9 @@ public class DirCacheCheckout {
 		 * 3    D        F       D                 Y       N       N           Keep
 		 * 4    D        F       D                 N       N       N           Conflict
 		 * 5    D        F       F       Y         N       N       Y           Keep
+		 * 5b   D        F       F       Y         N       N       N           Conflict
 		 * 6    D        F       F       N         N       N       Y           Keep
+		 * 6b   D        F       F       N         N       N       N           Conflict
 		 * 7    F        D       F       Y         Y       N       N           Update
 		 * 8    F        D       F       N         Y       N       N           Conflict
 		 * 9    F        D       F       Y         N       N       N           Update
@@ -620,7 +622,11 @@ public class DirCacheCheckout {
 			case 0xF0D: // 18
 				remove(name);
 				break;
-			case 0xDFF: // 5 6
+			case 0xDFF: // 5 5b 6 6b
+				if (equalIdAndMode(iId, iMode, mId, mMode))
+					keep(dce); // 5 6
+				else
+					conflict(name, dce, h, m); // 5b 6b
 			case 0xFDD: // 10 11
 				// TODO: make use of tree extension as soon as available in jgit
 				// we would like to do something like