init_revisions(&rev_info, NULL);
                rev_info.diffopt.output_format = DIFF_FORMAT_NAME_STATUS;
-               diff_opt_parse(&rev_info.diffopt, &diff_filter_str, 1);
+               diff_opt_parse(&rev_info.diffopt, &diff_filter_str, 1, rev_info.prefix);
                add_pending_sha1(&rev_info, "HEAD", our_tree, 0);
                diff_setup_done(&rev_info.diffopt);
                run_diff_index(&rev_info, 1);
 
                        if (!pager)
                                pager = "cat";
-                       argv_array_push(&cp.args, pager);
+                       prepare_pager_args(&cp, pager);
                        argv_array_push(&cp.args, am_path(state, "patch"));
                        run_command(&cp);
                }
         */
        if (!state->rebasing) {
                am_destroy(state);
+               close_all_packs();
                run_command_v_opt(argv_gc_auto, RUN_GIT_CMD);
        }
 }