Run clang-format on all files

The main change here is to reorder headers.

src/fish_indent.cpp

@@ -24,8 +24,8 @@ Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA
 #include <stdio.h>
 #include <stdlib.h>
 #include <wctype.h>
-#include <cstring>
 
+#include <cstring>
 #include <cwchar>
 #include <memory>
 #include <stack>