Only hide gitdir if the repository isn't bare

This problem was raised on the jgit list
https://dev.eclipse.org/mhonarc/lists/jgit-dev/msg02675.html

Change-Id: I8ce8a159120ce3747d31d6f012c6d2c0d0ce7917
Signed-off-by: Matthias Sohn <matthias.sohn@sap.com>

org.eclipse.jgit/src/org/eclipse/jgit/internal/storage/file/FileRepository.java

@@ -273,7 +273,7 @@ public class FileRepository extends Repository {
 				ConfigConstants.CONFIG_CORE_SECTION, null,
 				ConfigConstants.CONFIG_KEY_HIDEDOTFILES,
 				HideDotFiles.DOTGITONLY);
-		if (hideDotFiles != HideDotFiles.FALSE)
+		if (hideDotFiles != HideDotFiles.FALSE && !isBare())
 			getFS().setHidden(getDirectory(), true);
 		refs.create();
 		objectDatabase.create();