Merge branch 'nd/the-index-final'

The assumption to work on the single "in-core index" instance has
been reduced from the library-ish part of the codebase.

* nd/the-index-final:
  cache.h: flip NO_THE_INDEX_COMPATIBILITY_MACROS switch
  read-cache.c: remove the_* from index_has_changes()
  merge-recursive.c: remove implicit dependency on the_repository
  merge-recursive.c: remove implicit dependency on the_index
  sha1-name.c: remove implicit dependency on the_index
  read-cache.c: replace update_index_if_able with repo_&
  read-cache.c: kill read_index()
  checkout: avoid the_index when possible
  repository.c: replace hold_locked_index() with repo_hold_locked_index()
  notes-utils.c: remove the_repository references
  grep: use grep_opt->repo instead of explict repo argument

41 files changed, 111 insertions, 60 deletions

diff --git a/builtin/add.c b/builtin/add.c
index 7c2a7c5a4d..db2dfa4350 100644
--- a/builtin/add.c
+++ b/builtin/add.c
@@ -3,6 +3,7 @@
  *
  * Copyright (C) 2006 Linus Torvalds
  */
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "config.h"
 #include "builtin.h"
diff --git a/builtin/am.c b/builtin/am.c
index 0cc3997292..58a2aef28b 100644
--- a/builtin/am.c
+++ b/builtin/am.c
@@ -3,6 +3,7 @@
  *
  * Based on git-am.sh by Junio C Hamano.
  */
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "config.h"
 #include "builtin.h"
@@ -511,7 +512,7 @@ static int copy_notes_for_rebase(const struct am_state *state)
 	}
 
 finish:
-	finish_copy_notes_for_rewrite(c, msg);
+	finish_copy_notes_for_rewrite(the_repository, c, msg);
 	fclose(fp);
 	strbuf_release(&sb);
 	return ret;
@@ -1529,7 +1530,7 @@ static int fall_back_threeway(const struct am_state *state, const char *index_pa
 	 * changes.
 	 */
 
-	init_merge_options(&o);
+	init_merge_options(&o, the_repository);
 
 	o.branch1 = "HEAD";
 	their_tree_name = xstrfmt("%.*s", linelen(state->msg), state->msg);
@@ -1703,7 +1704,7 @@ static void am_run(struct am_state *state, int resume)
 
 	refresh_and_write_cache();
 
-	if (index_has_changes(&the_index, NULL, &sb)) {
+	if (repo_index_has_changes(the_repository, NULL, &sb)) {
 		write_state_bool(state, "dirtyindex", 1);
 		die(_("Dirty index: cannot apply patches (dirty: %s)"), sb.buf);
 	}
@@ -1761,7 +1762,7 @@ static void am_run(struct am_state *state, int resume)
 			 * the result may have produced the same tree as ours.
 			 */
 			if (!apply_status &&
-			    !index_has_changes(&the_index, NULL, NULL)) {
+			    !repo_index_has_changes(the_repository, NULL, NULL)) {
 				say(state, stdout, _("No changes -- Patch already applied."));
 				goto next;
 			}
@@ -1815,7 +1816,7 @@ static void am_resolve(struct am_state *state)
 
 	say(state, stdout, _("Applying: %.*s"), linelen(state->msg), state->msg);
 
-	if (!index_has_changes(&the_index, NULL, NULL)) {
+	if (!repo_index_has_changes(the_repository, NULL, NULL)) {
 		printf_ln(_("No changes - did you forget to use 'git add'?\n"
 			"If there is nothing left to stage, chances are that something else\n"
 			"already introduced the same changes; you might want to skip this patch."));
@@ -2271,7 +2272,7 @@ int cmd_am(int argc, const char **argv, const char *prefix)
 	/* Ensure a valid committer ident can be constructed */
 	git_committer_info(IDENT_STRICT);
 
-	if (read_index_preload(&the_index, NULL, 0) < 0)
+	if (repo_read_index_preload(the_repository, NULL, 0) < 0)
 		die(_("failed to read the index"));
 
 	if (in_progress) {
diff --git a/builtin/blame.c b/builtin/blame.c
index 6d798f9939..0074ed311c 100644
--- a/builtin/blame.c
+++ b/builtin/blame.c
@@ -1007,7 +1007,8 @@ parse_done:
 		long bottom, top;
 		if (parse_range_arg(range_list.items[range_i].string,
 				    nth_line_cb, &sb, lno, anchor,
-				    &bottom, &top, sb.path, &the_index))
+				    &bottom, &top, sb.path,
+				    the_repository->index))
 			usage(blame_usage);
 		if ((!lno && (top || bottom)) || lno < bottom)
 			die(Q_("file %s has only %lu line",
diff --git a/builtin/cat-file.c b/builtin/cat-file.c
index cebc6d7f8a..8487cd7dba 100644
--- a/builtin/cat-file.c
+++ b/builtin/cat-file.c
@@ -3,6 +3,7 @@
  *
  * Copyright (C) Linus Torvalds, 2005
  */
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "config.h"
 #include "builtin.h"
@@ -73,7 +74,8 @@ static int cat_one_file(int opt, const char *exp_type, const char *obj_name,
 	if (unknown_type)
 		flags |= OBJECT_INFO_ALLOW_UNKNOWN_TYPE;
 
-	if (get_oid_with_context(obj_name, GET_OID_RECORD_PATH,
+	if (get_oid_with_context(the_repository, obj_name,
+				 GET_OID_RECORD_PATH,
 				 &oid, &obj_context))
 		die("Not a valid object name %s", obj_name);
 
@@ -382,7 +384,8 @@ static void batch_one_object(const char *obj_name,
 	int flags = opt->follow_symlinks ? GET_OID_FOLLOW_SYMLINKS : 0;
 	enum get_oid_result result;
 
-	result = get_oid_with_context(obj_name, flags, &data->oid, &ctx);
+	result = get_oid_with_context(the_repository, obj_name,
+				      flags, &data->oid, &ctx);
 	if (result != FOUND) {
 		switch (result) {
 		case MISSING_OBJECT:
diff --git a/builtin/check-attr.c b/builtin/check-attr.c
index 30a2f84274..dd83397786 100644
--- a/builtin/check-attr.c
+++ b/builtin/check-attr.c
@@ -1,3 +1,4 @@
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "builtin.h"
 #include "cache.h"
 #include "config.h"
diff --git a/builtin/check-ignore.c b/builtin/check-ignore.c
index ec9a959e08..599097304b 100644
--- a/builtin/check-ignore.c
+++ b/builtin/check-ignore.c
@@ -1,3 +1,4 @@
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "builtin.h"
 #include "cache.h"
 #include "config.h"
diff --git a/builtin/checkout-index.c b/builtin/checkout-index.c
index a2a726ad8d..1ac1cc290e 100644
--- a/builtin/checkout-index.c
+++ b/builtin/checkout-index.c
@@ -4,6 +4,7 @@
  * Copyright (C) 2005 Linus Torvalds
  *
  */
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "builtin.h"
 #include "config.h"
 #include "lockfile.h"
diff --git a/builtin/checkout.c b/builtin/checkout.c
index 9f8f3466f6..ece4eb14bf 100644
--- a/builtin/checkout.c
+++ b/builtin/checkout.c
@@ -1,3 +1,4 @@
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "builtin.h"
 #include "config.h"
 #include "checkout.h"
@@ -288,7 +289,7 @@ static int checkout_paths(const struct checkout_opts *opts,
 		return run_add_interactive(revision, "--patch=checkout",
 					   &opts->pathspec);
 
-	hold_locked_index(&lock_file, LOCK_DIE_ON_ERROR);
+	repo_hold_locked_index(the_repository, &lock_file, LOCK_DIE_ON_ERROR);
 	if (read_cache_preload(&opts->pathspec) < 0)
 		return error(_("index file corrupt"));
 
@@ -701,7 +702,7 @@ static int merge_working_tree(const struct checkout_opts *opts,
 			 * a pain; plumb in an option to set
 			 * o.renormalize?
 			 */
-			init_merge_options(&o);
+			init_merge_options(&o, the_repository);
 			o.verbosity = 0;
 			work = write_tree_from_memory(&o);
 
diff --git a/builtin/clean.c b/builtin/clean.c
index bbcdeb2d9e..aaba4af3c2 100644
--- a/builtin/clean.c
+++ b/builtin/clean.c
@@ -6,6 +6,7 @@
  * Based on git-clean.sh by Pavel Roskin
  */
 
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "builtin.h"
 #include "cache.h"
 #include "config.h"
diff --git a/builtin/clone.c b/builtin/clone.c
index 739de68820..50bde99618 100644
--- a/builtin/clone.c
+++ b/builtin/clone.c
@@ -8,6 +8,7 @@
  * Clone a repository into a different directory that does not yet exist.
  */
 
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "builtin.h"
 #include "config.h"
 #include "lockfile.h"
diff --git a/builtin/commit.c b/builtin/commit.c
index 7d2e0b61e5..2986553d5f 100644
--- a/builtin/commit.c
+++ b/builtin/commit.c
@@ -5,6 +5,7 @@
  * Based on git-commit.sh by Junio C Hamano and Linus Torvalds
  */
 
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "config.h"
 #include "lockfile.h"
@@ -1368,7 +1369,7 @@ int cmd_status(int argc, const char **argv, const char *prefix)
 	if (status_format != STATUS_FORMAT_PORCELAIN &&
 	    status_format != STATUS_FORMAT_PORCELAIN_V2)
 		progress_flag = REFRESH_PROGRESS;
-	read_index(&the_index);
+	repo_read_index(the_repository);
 	refresh_index(&the_index,
 		      REFRESH_QUIET|REFRESH_UNMERGED|progress_flag,
 		      &s.pathspec, NULL, NULL);
@@ -1397,7 +1398,7 @@ int cmd_status(int argc, const char **argv, const char *prefix)
 	wt_status_collect(&s);
 
 	if (0 <= fd)
-		update_index_if_able(&the_index, &index_lock);
+		repo_update_index_if_able(the_repository, &index_lock);
 
 	if (s.relative_paths)
 		s.prefix = prefix;
@@ -1675,7 +1676,7 @@ int cmd_commit(int argc, const char **argv, const char *prefix)
 	run_command_v_opt(argv_gc_auto, RUN_GIT_CMD);
 	run_commit_hook(use_editor, get_index_file(), "post-commit", NULL);
 	if (amend && !no_post_rewrite) {
-		commit_post_rewrite(current_head, &oid);
+		commit_post_rewrite(the_repository, current_head, &oid);
 	}
 	if (!quiet) {
 		unsigned int flags = 0;
diff --git a/builtin/describe.c b/builtin/describe.c
index cc118448ee..02ec56417a 100644
--- a/builtin/describe.c
+++ b/builtin/describe.c
@@ -1,3 +1,4 @@
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "config.h"
 #include "lockfile.h"
@@ -634,7 +635,7 @@ int cmd_describe(int argc, const char **argv, const char *prefix)
 				      NULL, NULL, NULL);
 			fd = hold_locked_index(&index_lock, 0);
 			if (0 <= fd)
-				update_index_if_able(&the_index, &index_lock);
+				repo_update_index_if_able(the_repository, &index_lock);
 
 			repo_init_revisions(the_repository, &revs, prefix);
 			argv_array_pushv(&args, diff_index_args);
diff --git a/builtin/diff-files.c b/builtin/diff-files.c
index 48cfcb935d..86ae474fbf 100644
--- a/builtin/diff-files.c
+++ b/builtin/diff-files.c
@@ -3,6 +3,7 @@
  *
  * Copyright (C) Linus Torvalds, 2005
  */
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "config.h"
 #include "diff.h"
diff --git a/builtin/diff-index.c b/builtin/diff-index.c
index fcccd1f10d..93ec642423 100644
--- a/builtin/diff-index.c
+++ b/builtin/diff-index.c
@@ -1,3 +1,4 @@
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "config.h"
 #include "diff.h"
diff --git a/builtin/diff-tree.c b/builtin/diff-tree.c
index ef996126d7..a90681bcba 100644
--- a/builtin/diff-tree.c
+++ b/builtin/diff-tree.c
@@ -1,3 +1,4 @@
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "config.h"
 #include "diff.h"
@@ -165,7 +166,7 @@ int cmd_diff_tree(int argc, const char **argv, const char *prefix)
 
 		if (opt->diffopt.detect_rename) {
 			if (!the_index.cache)
-				read_index(&the_index);
+				repo_read_index(the_repository);
 			opt->diffopt.setup |= DIFF_SETUP_USE_SIZE_CACHE;
 		}
 		while (fgets(line, sizeof(line), stdin)) {
diff --git a/builtin/diff.c b/builtin/diff.c
index f0393bba23..74351a5757 100644
--- a/builtin/diff.c
+++ b/builtin/diff.c
@@ -3,6 +3,7 @@
  *
  * Copyright (c) 2006 Junio C Hamano
  */
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "config.h"
 #include "lockfile.h"
@@ -212,7 +213,7 @@ static void refresh_index_quietly(void)
 	discard_cache();
 	read_cache();
 	refresh_cache(REFRESH_QUIET|REFRESH_UNMERGED);
-	update_index_if_able(&the_index, &lock_file);
+	repo_update_index_if_able(the_repository, &lock_file);
 }
 
 static int builtin_diff_files(struct rev_info *revs, int argc, const char **argv)
diff --git a/builtin/difftool.c b/builtin/difftool.c
index 71318c26e1..a3ea60ea71 100644
--- a/builtin/difftool.c
+++ b/builtin/difftool.c
@@ -11,6 +11,7 @@
  *
  * Copyright (C) 2016 Johannes Schindelin
  */
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "config.h"
 #include "builtin.h"
diff --git a/builtin/fsck.c b/builtin/fsck.c
index 9c4c11d0ad..bb4227bebc 100644
--- a/builtin/fsck.c
+++ b/builtin/fsck.c
@@ -1,3 +1,4 @@
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "builtin.h"
 #include "cache.h"
 #include "repository.h"
diff --git a/builtin/grep.c b/builtin/grep.c
index dd52ea968b..580fd38f41 100644
--- a/builtin/grep.c
+++ b/builtin/grep.c
@@ -3,6 +3,7 @@
  *
  * Copyright (c) 2006 Junio C Hamano
  */
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "repository.h"
 #include "config.h"
@@ -393,21 +394,22 @@ static void run_pager(struct grep_opt *opt, const char *prefix)
 		exit(status);
 }
 
-static int grep_cache(struct grep_opt *opt, struct repository *repo,
+static int grep_cache(struct grep_opt *opt,
 		      const struct pathspec *pathspec, int cached);
 static int grep_tree(struct grep_opt *opt, const struct pathspec *pathspec,
 		     struct tree_desc *tree, struct strbuf *base, int tn_len,
-		     int check_attr, struct repository *repo);
+		     int check_attr);
 
-static int grep_submodule(struct grep_opt *opt, struct repository *superproject,
+static int grep_submodule(struct grep_opt *opt,
 			  const struct pathspec *pathspec,
 			  const struct object_id *oid,
 			  const char *filename, const char *path)
 {
 	struct repository subrepo;
+	struct repository *superproject = opt->repo;
 	const struct submodule *sub = submodule_from_path(superproject,
 							  &null_oid, path);
-
+	struct grep_opt subopt;
 	int hit;
 
 	/*
@@ -443,6 +445,9 @@ static int grep_submodule(struct grep_opt *opt, struct repository *superproject,
 	add_to_alternates_memory(subrepo.objects->odb->path);
 	grep_read_unlock();
 
+	memcpy(&subopt, opt, sizeof(subopt));
+	subopt.repo = &subrepo;
+
 	if (oid) {
 		struct object *object;
 		struct tree_desc tree;
@@ -464,21 +469,22 @@ static int grep_submodule(struct grep_opt *opt, struct repository *superproject,
 		strbuf_addch(&base, '/');
 
 		init_tree_desc(&tree, data, size);
-		hit = grep_tree(opt, pathspec, &tree, &base, base.len,
-				object->type == OBJ_COMMIT, &subrepo);
+		hit = grep_tree(&subopt, pathspec, &tree, &base, base.len,
+				object->type == OBJ_COMMIT);
 		strbuf_release(&base);
 		free(data);
 	} else {
-		hit = grep_cache(opt, &subrepo, pathspec, 1);
+		hit = grep_cache(&subopt, pathspec, 1);
 	}
 
 	repo_clear(&subrepo);
 	return hit;
 }
 
-static int grep_cache(struct grep_opt *opt, struct repository *repo,
+static int grep_cache(struct grep_opt *opt,
 		      const struct pathspec *pathspec, int cached)
 {
+	struct repository *repo = opt->repo;
 	int hit = 0;
 	int nr;
 	struct strbuf name = STRBUF_INIT;
@@ -516,7 +522,7 @@ static int grep_cache(struct grep_opt *opt, struct repository *repo,
 			}
 		} else if (recurse_submodules && S_ISGITLINK(ce->ce_mode) &&
 			   submodule_path_match(repo->index, pathspec, name.buf, NULL)) {
-			hit |= grep_submodule(opt, repo, pathspec, NULL, ce->name, ce->name);
+			hit |= grep_submodule(opt, pathspec, NULL, ce->name, ce->name);
 		} else {
 			continue;
 		}
@@ -538,8 +544,9 @@ static int grep_cache(struct grep_opt *opt, struct repository *repo,
 
 static int grep_tree(struct grep_opt *opt, const struct pathspec *pathspec,
 		     struct tree_desc *tree, struct strbuf *base, int tn_len,
-		     int check_attr, struct repository *repo)
+		     int check_attr)
 {
+	struct repository *repo = opt->repo;
 	int hit = 0;
 	enum interesting match = entry_not_interesting;
 	struct name_entry entry;
@@ -586,10 +593,10 @@ static int grep_tree(struct grep_opt *opt, const struct pathspec *pathspec,
 			strbuf_addch(base, '/');
 			init_tree_desc(&sub, data, size);
 			hit |= grep_tree(opt, pathspec, &sub, base, tn_len,
-					 check_attr, repo);
+					 check_attr);
 			free(data);
 		} else if (recurse_submodules && S_ISGITLINK(entry.mode)) {
-			hit |= grep_submodule(opt, repo, pathspec, &entry.oid,
+			hit |= grep_submodule(opt, pathspec, &entry.oid,
 					      base->buf, base->buf + tn_len);
 		}
 
@@ -631,7 +638,7 @@ static int grep_object(struct grep_opt *opt, const struct pathspec *pathspec,
 		}
 		init_tree_desc(&tree, data, size);
 		hit = grep_tree(opt, pathspec, &tree, &base, base.len,
-				obj->type == OBJ_COMMIT, the_repository);
+				obj->type == OBJ_COMMIT);
 		strbuf_release(&base);
 		free(data);
 		return hit;
@@ -648,12 +655,12 @@ static int grep_objects(struct grep_opt *opt, const struct pathspec *pathspec,
 
 	for (i = 0; i < nr; i++) {
 		struct object *real_obj;
-		real_obj = deref_tag(the_repository, list->objects[i].item,
+		real_obj = deref_tag(opt->repo, list->objects[i].item,
 				     NULL, 0);
 
 		/* load the gitmodules file for this rev */
 		if (recurse_submodules) {
-			submodule_free(the_repository);
+			submodule_free(opt->repo);
 			gitmodules_config_oid(&real_obj->oid);
 		}
 		if (grep_object(opt, pathspec, real_obj, list->objects[i].name,
@@ -678,9 +685,9 @@ static int grep_directory(struct grep_opt *opt, const struct pathspec *pathspec,
 	if (exc_std)
 		setup_standard_excludes(&dir);
 
-	fill_directory(&dir, &the_index, pathspec);
+	fill_directory(&dir, opt->repo->index, pathspec);
 	for (i = 0; i < dir.nr; i++) {
-		if (!dir_path_match(&the_index, dir.entries[i], pathspec, 0, NULL))
+		if (!dir_path_match(opt->repo->index, dir.entries[i], pathspec, 0, NULL))
 			continue;
 		hit |= grep_file(opt, dir.entries[i]->name);
 		if (hit && opt->status_only)
@@ -1018,7 +1025,8 @@ int cmd_grep(int argc, const char **argv, const char *prefix)
 			break;
 		}
 
-		if (get_oid_with_context(arg, GET_OID_RECORD_PATH,
+		if (get_oid_with_context(the_repository, arg,
+					 GET_OID_RECORD_PATH,
 					 &oid, &oc)) {
 			if (seen_dashdash)
 				die(_("unable to resolve revision: %s"), arg);
@@ -1121,7 +1129,7 @@ int cmd_grep(int argc, const char **argv, const char *prefix)
 		if (!cached)
 			setup_work_tree();
 
-		hit = grep_cache(&opt, the_repository, &pathspec, cached);
+		hit = grep_cache(&opt, &pathspec, cached);
 	} else {
 		if (cached)
 			die(_("both --cached and trees are given"));
diff --git a/builtin/hash-object.c b/builtin/hash-object.c
index d6f06ea32f..e055c11103 100644
--- a/builtin/hash-object.c
+++ b/builtin/hash-object.c
@@ -40,7 +40,8 @@ static void hash_fd(int fd, const char *type, const char *path, unsigned flags,
 	if (fstat(fd, &st) < 0 ||
 	    (literally
 	     ? hash_literally(&oid, fd, type, flags)
-	     : index_fd(&the_index, &oid, fd, &st, type_from_string(type), path, flags)))
+	     : index_fd(the_repository->index, &oid, fd, &st,
+			type_from_string(type), path, flags)))
 		die((flags & HASH_WRITE_OBJECT)
 		    ? "Unable to add %s to database"
 		    : "Unable to hash %s", path);
diff --git a/builtin/log.c b/builtin/log.c
index c91a59dec1..57869267d8 100644
--- a/builtin/log.c
+++ b/builtin/log.c
@@ -4,6 +4,7 @@
  * (C) Copyright 2006 Linus Torvalds
  *		 2006 Junio Hamano
  */
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "config.h"
 #include "refs.h"
@@ -509,7 +510,8 @@ static int show_blob_object(const struct object_id *oid, struct rev_info *rev, c
 	    !rev->diffopt.flags.allow_textconv)
 		return stream_blob_to_fd(1, oid, NULL, 0);
 
-	if (get_oid_with_context(obj_name, GET_OID_RECORD_PATH,
+	if (get_oid_with_context(the_repository, obj_name,
+				 GET_OID_RECORD_PATH,
 				 &oidc, &obj_context))
 		die(_("Not a valid object name %s"), obj_name);
 	if (!obj_context.path ||
diff --git a/builtin/ls-files.c b/builtin/ls-files.c
index cde87cbeeb..29a8762d46 100644
--- a/builtin/ls-files.c
+++ b/builtin/ls-files.c
@@ -5,7 +5,6 @@
  *
  * Copyright (C) Linus Torvalds, 2005
  */
-#define NO_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "repository.h"
 #include "config.h"
diff --git a/builtin/merge-index.c b/builtin/merge-index.c
index c99443b095..38ea6ad6ca 100644
--- a/builtin/merge-index.c
+++ b/builtin/merge-index.c
@@ -1,3 +1,4 @@
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "builtin.h"
 #include "run-command.h"
 
diff --git a/builtin/merge-ours.c b/builtin/merge-ours.c
index 0b07263415..4594507420 100644
--- a/builtin/merge-ours.c
+++ b/builtin/merge-ours.c
@@ -7,6 +7,7 @@
  *
  * Pretend we resolved the heads, but declare our tree trumps everybody else.
  */
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "git-compat-util.h"
 #include "builtin.h"
 #include "diff.h"
diff --git a/builtin/merge-recursive.c b/builtin/merge-recursive.c
index 7545136c2a..5b910e351e 100644
--- a/builtin/merge-recursive.c
+++ b/builtin/merge-recursive.c
@@ -29,7 +29,7 @@ int cmd_merge_recursive(int argc, const char **argv, const char *prefix)
 	char *better1, *better2;
 	struct commit *result;
 
-	init_merge_options(&o);
+	init_merge_options(&o, the_repository);
 	if (argv[0] && ends_with(argv[0], "-subtree"))
 		o.subtree_shift = "";
 
diff --git a/builtin/merge-tree.c b/builtin/merge-tree.c
index 5541ad091e..34ca0258b1 100644
--- a/builtin/merge-tree.c
+++ b/builtin/merge-tree.c
@@ -1,3 +1,4 @@
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "builtin.h"
 #include "tree-walk.h"
 #include "xdiff-interface.h"
@@ -76,7 +77,8 @@ static void *result(struct merge_list *entry, unsigned long *size)
 	their = NULL;
 	if (entry)
 		their = entry->blob;
-	return merge_blobs(&the_index, path, base, our, their, size);
+	return merge_blobs(the_repository->index, path,
+			   base, our, their, size);
 }
 
 static void *origin(struct merge_list *entry, unsigned long *size)
diff --git a/builtin/merge.c b/builtin/merge.c
index dc0b7cc521..e47d77baee 100644
--- a/builtin/merge.c
+++ b/builtin/merge.c
@@ -6,6 +6,7 @@
  * Based on git-merge.sh by Junio C Hamano.
  */
 
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "config.h"
 #include "parse-options.h"
@@ -702,7 +703,7 @@ static int try_merge_strategy(const char *strategy, struct commit_list *common,
 			return 2;
 		}
 
-		init_merge_options(&o);
+		init_merge_options(&o, the_repository);
 		if (!strcmp(strategy, "subtree"))
 			o.subtree_shift = "";
 
diff --git a/builtin/mv.c b/builtin/mv.c
index 80bb967a63..be15ba7044 100644
--- a/builtin/mv.c
+++ b/builtin/mv.c
@@ -3,6 +3,7 @@
  *
  * Copyright (C) 2006 Johannes Schindelin
  */
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "builtin.h"
 #include "config.h"
 #include "pathspec.h"
diff --git a/builtin/notes.c b/builtin/notes.c
index 4996a670f7..02e97f55c5 100644
--- a/builtin/notes.c
+++ b/builtin/notes.c
@@ -330,10 +330,10 @@ static int notes_copy_from_stdin(int force, const char *rewrite_cmd)
 	}
 
 	if (!rewrite_cmd) {
-		commit_notes(t, msg);
+		commit_notes(the_repository, t, msg);
 		free_notes(t);
 	} else {
-		finish_copy_notes_for_rewrite(c, msg);
+		finish_copy_notes_for_rewrite(the_repository, c, msg);
 	}
 	strbuf_release(&buf);
 	return ret;
@@ -469,12 +469,14 @@ static int add(int argc, const char **argv, const char *prefix)
 		write_note_data(&d, &new_note);
 		if (add_note(t, &object, &new_note, combine_notes_overwrite))
 			BUG("combine_notes_overwrite failed");
-		commit_notes(t, "Notes added by 'git notes add'");
+		commit_notes(the_repository, t,
+			     "Notes added by 'git notes add'");
 	} else {
 		fprintf(stderr, _("Removing note for object %s\n"),
 			oid_to_hex(&object));
 		remove_note(t, object.hash);
-		commit_notes(t, "Notes removed by 'git notes add'");
+		commit_notes(the_repository, t,
+			     "Notes removed by 'git notes add'");
 	}
 
 	free_note_data(&d);
@@ -552,7 +554,8 @@ static int copy(int argc, const char **argv, const char *prefix)
 
 	if (add_note(t, &object, from_note, combine_notes_overwrite))
 		BUG("combine_notes_overwrite failed");
-	commit_notes(t, "Notes added by 'git notes copy'");
+	commit_notes(the_repository, t,
+		     "Notes added by 'git notes copy'");
 out:
 	free_notes(t);
 	return retval;
@@ -636,7 +639,7 @@ static int append_edit(int argc, const char **argv, const char *prefix)
 		remove_note(t, object.hash);
 		logmsg = xstrfmt("Notes removed by 'git notes %s'", argv[0]);
 	}
-	commit_notes(t, logmsg);
+	commit_notes(the_repository, t, logmsg);
 
 	free(logmsg);
 	free_note_data(&d);
@@ -937,7 +940,8 @@ static int remove_cmd(int argc, const char **argv, const char *prefix)
 		strbuf_release(&sb);
 	}
 	if (!retval)
-		commit_notes(t, "Notes removed by 'git notes remove'");
+		commit_notes(the_repository, t,
+			     "Notes removed by 'git notes remove'");
 	free_notes(t);
 	return retval;
 }
@@ -965,7 +969,8 @@ static int prune(int argc, const char **argv, const char *prefix)
 	prune_notes(t, (verbose ? NOTES_PRUNE_VERBOSE : 0) |
 		(show_only ? NOTES_PRUNE_VERBOSE|NOTES_PRUNE_DRYRUN : 0) );
 	if (!show_only)
-		commit_notes(t, "Notes removed by 'git notes prune'");
+		commit_notes(the_repository, t,
+			     "Notes removed by 'git notes prune'");
 	free_notes(t);
 	return 0;
 }
diff --git a/builtin/pack-objects.c b/builtin/pack-objects.c
index 8eb5391c08..ffef8dcf2f 100644
--- a/builtin/pack-objects.c
+++ b/builtin/pack-objects.c
@@ -970,7 +970,7 @@ static int no_try_delta(const char *path)
 
 	if (!check)
 		check = attr_check_initl("delta", NULL);
-	git_check_attr(&the_index, path, check);
+	git_check_attr(the_repository->index, path, check);
 	if (ATTR_FALSE(check->items[0].value))
 		return 1;
 	return 0;
diff --git a/builtin/pull.c b/builtin/pull.c
index 74808b9455..701d1473dc 100644
--- a/builtin/pull.c
+++ b/builtin/pull.c
@@ -5,6 +5,7 @@
  *
  * Fetch one or more remote refs and merge it/them into the current HEAD.
  */
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "config.h"
 #include "builtin.h"
diff --git a/builtin/read-tree.c b/builtin/read-tree.c
index ac255ad2c2..9083dcfa28 100644
--- a/builtin/read-tree.c
+++ b/builtin/read-tree.c
@@ -4,6 +4,7 @@
  * Copyright (C) Linus Torvalds, 2005
  */
 
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "config.h"
 #include "lockfile.h"
diff --git a/builtin/rebase--interactive.c b/builtin/rebase--interactive.c
index c2c2d51a3b..888390f911 100644
--- a/builtin/rebase--interactive.c
+++ b/builtin/rebase--interactive.c
@@ -1,3 +1,4 @@
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "builtin.h"
 #include "cache.h"
 #include "config.h"
diff --git a/builtin/rebase.c b/builtin/rebase.c
index 8d49e53997..0b039319e1 100644
--- a/builtin/rebase.c
+++ b/builtin/rebase.c
@@ -4,6 +4,7 @@
  * Copyright (c) 2018 Pratik Karki
  */
 
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "builtin.h"
 #include "run-command.h"
 #include "exec-cmd.h"
@@ -419,7 +420,7 @@ static int reset_head(struct object_id *oid, const char *action,
 	if (!detach_head)
 		unpack_tree_opts.reset = 1;
 
-	if (read_index_unmerged(the_repository->index) < 0) {
+	if (repo_read_index_unmerged(the_repository) < 0) {
 		ret = error(_("could not read index"));
 		goto leave_reset_head;
 	}
@@ -1233,13 +1234,12 @@ int cmd_rebase(int argc, const char **argv, const char *prefix)
 			die(_("Cannot read HEAD"));
 
 		fd = hold_locked_index(&lock_file, 0);
-		if (read_index(the_repository->index) < 0)
+		if (repo_read_index(the_repository) < 0)
 			die(_("could not read index"));
 		refresh_index(the_repository->index, REFRESH_QUIET, NULL, NULL,
 			      NULL);
 		if (0 <= fd)
-			update_index_if_able(the_repository->index,
-					     &lock_file);
+			repo_update_index_if_able(the_repository, &lock_file);
 		rollback_lock_file(&lock_file);
 
 		if (has_unstaged_changes(the_repository, 1)) {
@@ -1591,7 +1591,7 @@ int cmd_rebase(int argc, const char **argv, const char *prefix)
 			get_fork_point(options.upstream_name, head);
 	}
 
-	if (read_index(the_repository->index) < 0)
+	if (repo_read_index(the_repository) < 0)
 		die(_("could not read index"));
 
 	if (options.autostash) {
@@ -1601,7 +1601,7 @@ int cmd_rebase(int argc, const char **argv, const char *prefix)
 		fd = hold_locked_index(&lock_file, 0);
 		refresh_cache(REFRESH_QUIET);
 		if (0 <= fd)
-			update_index_if_able(&the_index, &lock_file);
+			repo_update_index_if_able(the_repository, &lock_file);
 		rollback_lock_file(&lock_file);
 
 		if (has_unstaged_changes(the_repository, 1) ||
@@ -1646,7 +1646,7 @@ int cmd_rebase(int argc, const char **argv, const char *prefix)
 			putchar('\n');
 
 			if (discard_index(the_repository->index) < 0 ||
-				read_index(the_repository->index) < 0)
+				repo_read_index(the_repository) < 0)
 				die(_("could not read index"));
 		}
 	}
diff --git a/builtin/replace.c b/builtin/replace.c
index affcdfb416..5b80b7f211 100644
--- a/builtin/replace.c
+++ b/builtin/replace.c
@@ -295,7 +295,7 @@ static int import_object(struct object_id *oid, enum object_type type,
 			close(fd);
 			return -1;
 		}
-		if (index_fd(&the_index, oid, fd, &st, type, NULL, flags) < 0)
+		if (index_fd(the_repository->index, oid, fd, &st, type, NULL, flags) < 0)
 			return error(_("unable to write object to database"));
 		/* index_fd close()s fd for us */
 	}
diff --git a/builtin/reset.c b/builtin/reset.c
index 59898c972e..4d18a461fa 100644
--- a/builtin/reset.c
+++ b/builtin/reset.c
@@ -7,6 +7,7 @@
  *
  * Copyright (c) 2005, 2006 Linus Torvalds and Junio C Hamano
  */
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "builtin.h"
 #include "config.h"
 #include "lockfile.h"
diff --git a/builtin/rev-parse.c b/builtin/rev-parse.c
index 10d4dab894..f8bbe6d47e 100644
--- a/builtin/rev-parse.c
+++ b/builtin/rev-parse.c
@@ -3,6 +3,7 @@
  *
  * Copyright (C) Linus Torvalds, 2005
  */
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "config.h"
 #include "commit.h"
@@ -933,7 +934,8 @@ int cmd_rev_parse(int argc, const char **argv, const char *prefix)
 			name++;
 			type = REVERSED;
 		}
-		if (!get_oid_with_context(name, flags, &oid, &unused)) {
+		if (!get_oid_with_context(the_repository, name,
+					  flags, &oid, &unused)) {
 			if (verify)
 				revs_count++;
 			else
diff --git a/builtin/rm.c b/builtin/rm.c
index 17086d3d97..db85b33982 100644
--- a/builtin/rm.c
+++ b/builtin/rm.c
@@ -3,6 +3,7 @@
  *
  * Copyright (C) Linus Torvalds 2006
  */
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "builtin.h"
 #include "config.h"
 #include "lockfile.h"
diff --git a/builtin/submodule--helper.c b/builtin/submodule--helper.c
index 0e140f176c..b80fc4ba3d 100644
--- a/builtin/submodule--helper.c
+++ b/builtin/submodule--helper.c
@@ -1,3 +1,4 @@
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "builtin.h"
 #include "repository.h"
 #include "cache.h"
diff --git a/builtin/update-index.c b/builtin/update-index.c
index e19da77edc..02ace602b9 100644
--- a/builtin/update-index.c
+++ b/builtin/update-index.c
@@ -3,6 +3,7 @@
  *
  * Copyright (C) Linus Torvalds, 2005
  */
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "cache.h"
 #include "config.h"
 #include "lockfile.h"
diff --git a/builtin/write-tree.c b/builtin/write-tree.c
index cdcbf8264e..3d46d22ee5 100644
--- a/builtin/write-tree.c
+++ b/builtin/write-tree.c
@@ -3,6 +3,7 @@
  *
  * Copyright (C) Linus Torvalds, 2005
  */
+#define USE_THE_INDEX_COMPATIBILITY_MACROS
 #include "builtin.h"
 #include "cache.h"
 #include "config.h"