Merge branch 'nd/no-the-index'

The more library-ish parts of the codebase learned to work on the
in-core index-state instance that is passed in by their callers,
instead of always working on the singleton "the_index" instance.

* nd/no-the-index: (24 commits)
  blame.c: remove implicit dependency on the_index
  apply.c: remove implicit dependency on the_index
  apply.c: make init_apply_state() take a struct repository
  apply.c: pass struct apply_state to more functions
  resolve-undo.c: use the right index instead of the_index
  archive-*.c: use the right repository
  archive.c: avoid access to the_index
  grep: use the right index instead of the_index
  attr: remove index from git_attr_set_direction()
  entry.c: use the right index instead of the_index
  submodule.c: use the right index instead of the_index
  pathspec.c: use the right index instead of the_index
  unpack-trees: avoid the_index in verify_absent()
  unpack-trees: convert clear_ce_flags* to avoid the_index
  unpack-trees: don't shadow global var the_index
  unpack-trees: add a note about path invalidation
  unpack-trees: remove 'extern' on function declaration
  ls-files: correct index argument to get_convert_attr_ascii()
  preload-index.c: use the right index instead of the_index
  dir.c: remove an implicit dependency on the_index in pathspec code
  ...

merge-recursive.c

@@ -966,7 +966,7 @@ static int update_file_flags(struct merge_options *o,
 		}
 		if (S_ISREG(mode)) {
 			struct strbuf strbuf = STRBUF_INIT;
-			if (convert_to_working_tree(path, buf, size, &strbuf)) {
+			if (convert_to_working_tree(&the_index, path, buf, size, &strbuf)) {
 				free(buf);
 				size = strbuf.len;
 				buf = strbuf_detach(&strbuf, NULL);