package irmin-pack
Irmin backend which stores values in a pack file
Install
Dune Dependency
Authors
Maintainers
Sources
irmin-3.10.0.tbz
sha256=92a9de7a0a2a35c2feba0c35a806b1f0df24c1c0d15164eebf3f919296d26715
sha512=0203ec5117a851ad5afeb2f9091659b4e142e231b6b945caab93f4d7beb23397c8ac43f7056e91d18f4bff0be1062f6ae966d221f877c229328c0cbbf29fd9f0
doc/src/irmin-pack.unix/checks.ml.html
Source file checks.ml
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(* * Copyright (c) 2018-2022 Tarides <contact@tarides.com> * * Permission to use, copy, modify, and distribute this software for any * purpose with or without fee is hereby granted, provided that the above * copyright notice and this permission notice appear in all copies. * * THE SOFTWARE IS PROVIDED "AS IS" AND THE AUTHOR DISCLAIMS ALL WARRANTIES * WITH REGARD TO THIS SOFTWARE INCLUDING ALL IMPLIED WARRANTIES OF * MERCHANTABILITY AND FITNESS. IN NO EVENT SHALL THE AUTHOR BE LIABLE FOR * ANY SPECIAL, DIRECT, INDIRECT, OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES * WHATSOEVER RESULTING FROM LOSS OF USE, DATA OR PROFITS, WHETHER IN AN * ACTION OF CONTRACT, NEGLIGENCE OR OTHER TORTIOUS ACTION, ARISING OUT OF * OR IN CONNECTION WITH THE USE OR PERFORMANCE OF THIS SOFTWARE. *) open! Import include Checks_intf let setup_log = let init style_renderer level = let format_reporter = let report _src level ~over k msgf = let k _ = over (); k () in msgf @@ fun ?header:_ ?tags:_ fmt -> match level with | Logs.App -> Fmt.kpf k Fmt.stderr ("@[<v 0>%a" ^^ fmt ^^ "@]@.") Fmt.(styled `Bold (styled (`Fg `Cyan) string)) ">> " | _ -> Fmt.kpf k Fmt.stdout ("@[<v 0>" ^^ fmt ^^ "@]@.") in { Logs.report } in Fmt_tty.setup_std_outputs ?style_renderer (); Logs.set_level level; Logs.set_reporter format_reporter in Cmdliner.Term.(const init $ Fmt_cli.style_renderer () $ Logs_cli.level ()) let path = let open Cmdliner.Arg in required @@ pos 0 (some string) None @@ info ~doc:"Path to the Irmin store on disk" ~docv:"PATH" [] let deprecated_info = (Cmdliner.Term.info [@alert "-deprecated"]) let ppf_or_null ppf = let null = match Sys.os_type with | "Unix" | "Cygwin" -> "/dev/null" | "Win32" -> "NUL" | _ -> invalid_arg "invalid os type" in match ppf with | Some p -> p | None -> open_out null |> Format.formatter_of_out_channel module Make (Store : Store) = struct module Hash = Store.Hash module Index = Pack_index.Make (Hash) (** Read basic metrics from an existing store. *) module Stat = struct type size = Bytes of int [@@deriving irmin] type io = { size : size; offset : int63; version : Version.t } [@@deriving irmin] type objects = { nb_commits : int; nb_nodes : int; nb_contents : int } [@@deriving irmin] type t = { hash_size : size; log_size : int; objects : objects } [@@deriving irmin] let traverse_index ~root log_size = let index = Index.v_exn ~readonly:true ~fresh:false ~log_size root in let ppf = Format.err_formatter in let bar, (progress_contents, progress_nodes, progress_commits) = Utils.Object_counter.start ppf in let f _ (_, _, (kind : Pack_value.Kind.t)) = match kind with | Contents -> progress_contents () | Inode_v1_stable | Inode_v1_unstable | Inode_v2_root | Inode_v2_nonroot -> progress_nodes () | Commit_v1 | Commit_v2 -> progress_commits () | Dangling_parent_commit -> assert false in Index.iter f index; let nb_contents, nb_nodes, nb_commits = Utils.Object_counter.finalise_with_stats bar in { nb_contents; nb_nodes; nb_commits } let conf root = Conf.init ~readonly:true ~fresh:false ~no_migrate:true root let run ~root = [%logs.app "Getting statistics for store: `%s'@," root]; let log_size = conf root |> Conf.index_log_size in let objects = traverse_index ~root log_size in { hash_size = Bytes Hash.hash_size; log_size; objects } |> Irmin.Type.pp_json ~minify:false t Fmt.stdout; Lwt.return_unit let term_internal = Cmdliner.Term.(const (fun root () -> Lwt_main.run (run ~root)) $ path) let term = let doc = "Print high-level statistics about the store." in Cmdliner.Term.(term_internal $ setup_log, deprecated_info ~doc "stat") end module Reconstruct_index = struct let conf ~index_log_size root = Conf.init ~readonly:false ~fresh:false ?index_log_size ~no_migrate:true root let dest = let open Cmdliner.Arg in value & pos 1 (some string) None @@ info ~doc:"Path to the new index file" ~docv:"DEST" [] let index_log_size = let open Cmdliner.Arg in value & opt (some int) None @@ info ~doc:"Size of the index log file" [ "index-log-size" ] let run ~root ~output ?index_log_size () = let conf = conf ~index_log_size root in match output with | None -> Store.traverse_pack_file (`Reconstruct_index `In_place) conf | Some p -> Store.traverse_pack_file (`Reconstruct_index (`Output p)) conf let term_internal = Cmdliner.Term.( const (fun root output index_log_size () -> run ~root ~output ?index_log_size ()) $ path $ dest $ index_log_size) let term = let doc = "Reconstruct index from an existing pack file." in Cmdliner.Term. (term_internal $ setup_log, deprecated_info ~doc "reconstruct-index") end module Integrity_check_index = struct let conf root always = let indexing_strategy = if always then Irmin_pack.Indexing_strategy.always else Irmin_pack.Indexing_strategy.minimal in Conf.init ~readonly:true ~fresh:false ~no_migrate:true ~indexing_strategy root let run ~root ~auto_repair ~always () = let conf = conf root always in if auto_repair then Store.traverse_pack_file `Check_and_fix_index conf else Store.traverse_pack_file `Check_index conf let auto_repair = let open Cmdliner.Arg in value & (flag @@ info ~doc:"Add missing entries in index" [ "auto-repair" ]) let always = let open Cmdliner.Arg in value & (flag @@ info ~doc:"Use always indexing strategy" [ "always" ]) let term_internal = Cmdliner.Term.( const (fun root auto_repair always () -> run ~root ~auto_repair ~always ()) $ path $ auto_repair $ always) let term = let doc = "Check index integrity." in Cmdliner.Term. (term_internal $ setup_log, deprecated_info ~doc "integrity-check-index") end module Integrity_check = struct let conf root always = let indexing_strategy = if always then Irmin_pack.Indexing_strategy.always else Irmin_pack.Indexing_strategy.minimal in Conf.init ~readonly:false ~fresh:false ~no_migrate:true ~indexing_strategy root let handle_result ?ppf ?name res = let ppf = ppf_or_null ppf in let name = match name with Some x -> x ^ ": " | None -> "" in match res with | Ok (`Fixed n) -> Fmt.pf ppf "%sOk -- fixed %d\n%!" name n | Ok `No_error -> Fmt.pf ppf "%sOk\n%!" name | Error (`Cannot_fix x) -> Printf.eprintf "%sError -- cannot fix: %s\n%!" name x | Error (`Corrupted x) -> Printf.eprintf "%sError -- corrupted: %d\n%!" name x let run ?ppf ~root ~auto_repair ~always ~heads () = let conf = conf root always in let* repo = Store.Repo.v conf in let* heads = match heads with | None -> Store.Repo.heads repo | Some heads -> Lwt_list.filter_map_s (fun x -> match Repr.of_string Store.Hash.t x with | Ok x -> Store.Commit.of_hash repo x | Error (`Msg m) -> Fmt.kstr Lwt.fail_with "Invalid hash %S" m) heads in let* result = Store.integrity_check ?ppf ~auto_repair ~heads repo in let+ () = Store.Repo.close repo in handle_result ?ppf ?name:None result let heads = let open Cmdliner.Arg in value & opt (some (list ~sep:',' string)) None & info [ "heads" ] ~doc:"List of head commit hashes" ~docv:"HEADS" let auto_repair = let open Cmdliner.Arg in value & (flag @@ info ~doc:"Automatically repair issues" [ "auto-repair" ]) let always = let open Cmdliner.Arg in value & (flag @@ info ~doc:"Use always indexing strategy" [ "always" ]) let term_internal = Cmdliner.Term.( const (fun root auto_repair always heads () -> Lwt_main.run (run ~ppf:Format.err_formatter ~root ~auto_repair ~always ~heads ())) $ path $ auto_repair $ always $ heads) let term = let doc = "Check integrity of an existing store." in Cmdliner.Term. (term_internal $ setup_log, deprecated_info ~doc "integrity-check") end module Integrity_check_inodes = struct let conf root = Conf.init ~readonly:true ~fresh:false ~no_migrate:true root let heads = let open Cmdliner.Arg in value & opt (some (list ~sep:',' string)) None & info [ "heads" ] ~doc:"List of head commit hashes" ~docv:"HEADS" let run ~root ~heads = let conf = conf root in let* repo = Store.Repo.v conf in let* heads = match heads with | None -> Store.Repo.heads repo | Some heads -> Lwt_list.filter_map_s (fun x -> match Repr.of_string Store.Hash.t x with | Ok x -> Store.Commit.of_hash repo x | Error (`Msg m) -> Fmt.kstr Lwt.fail_with "Invalid hash %S" m) heads in let* () = Store.integrity_check_inodes ~heads repo >|= function | Ok `No_error -> [%logs.app "Ok"] | Error (`Cannot_fix msg) -> Fmt.failwith "Error: %s" msg in Store.Repo.close repo let term_internal = Cmdliner.Term.( const (fun root heads () -> Lwt_main.run (run ~root ~heads)) $ path $ heads) let term = let doc = "Check integrity of inodes in an existing store." in Cmdliner.Term. ( term_internal $ setup_log, deprecated_info ~doc "integrity-check-inodes" ) end module Stats_commit = struct let conf root = Conf.init ~readonly:true ~fresh:false ~no_migrate:true root let commit = let open Cmdliner.Arg in value & opt (some string) None & info [ "commit" ] ~doc:"The commit whose underlying tree is traversed." ~docv:"COMMIT" let dump_blob_paths_to = let open Cmdliner.Arg in value & opt (some string) None & info [ "dump_blob_paths_to" ] ~doc:"Print all paths to a blob in the tree in a file." let run ~root ~commit ~dump_blob_paths_to () = let conf = conf root in let* repo = Store.Repo.v conf in let* commit = match commit with | None -> ( let* heads = Store.Repo.heads repo in match heads with | [] -> Lwt.fail_with "No heads found" | [ head ] -> Lwt.return head | ls -> Fmt.kstr Lwt.fail_with "Several heads found, please specify one. Heads = %a" Fmt.(list ~sep:comma Store.Commit.pp_hash) ls) | Some hash -> ( match Repr.of_string Store.Hash.t hash with | Ok x -> ( Store.Commit.of_hash repo x >>= function | None -> Fmt.kstr Lwt.fail_with "Commit with hash %s not found" hash | Some x -> Lwt.return x) | Error (`Msg m) -> Fmt.kstr Lwt.fail_with "Invalid hash %S" m) in let* () = Store.stats ~dump_blob_paths_to ~commit repo in Store.Repo.close repo let term_internal = Cmdliner.Term.( const (fun root commit dump_blob_paths_to () -> Lwt_main.run (run ~root ~commit ~dump_blob_paths_to ())) $ path $ commit $ dump_blob_paths_to) let term = let doc = "Traverse one commit, specified with the --commit argument, in the \ store for stats. If no commit is specified the current head is used." in Cmdliner.Term. (term_internal $ setup_log, deprecated_info ~doc "stat-store") end module Cli = struct open Cmdliner let main ?(terms = [ Stat.term; Reconstruct_index.term; Integrity_check.term; Integrity_check_inodes.term; Integrity_check_index.term; Stats_commit.term; ]) () : empty = let default = let default_info = let doc = "Check Irmin data-stores." in deprecated_info ~doc "irmin-fsck" in Term.(ret (const (`Help (`Auto, None))), default_info) in let deprecated_eval_choice = (Term.eval_choice [@alert "-deprecated"]) in let deprecated_exit = (Term.exit [@alert "-deprecated"]) in deprecated_eval_choice default terms |> deprecated_exit; assert false end let cli = Cli.main end module Integrity_checks (XKey : Pack_key.S) (X : Irmin.Backend.S with type Commit.key = XKey.t and type Node.key = XKey.t and type Schema.Hash.t = XKey.hash) (Index : Pack_index.S) = struct let check_always ?ppf ~auto_repair ~check index = let ppf = ppf_or_null ppf in Fmt.pf ppf "Running the integrity_check.\n%!"; let nb_absent = ref 0 in let nb_corrupted = ref 0 in let exception Cannot_fix in let counter, (progress_contents, progress_nodes, progress_commits) = Utils.Object_counter.start ppf in let f (k, (offset, length, (kind : Pack_value.Kind.t))) = match kind with | Contents -> progress_contents (); check ~kind:`Contents ~offset ~length k | Inode_v1_stable | Inode_v1_unstable | Inode_v2_root | Inode_v2_nonroot -> progress_nodes (); check ~kind:`Node ~offset ~length k | Commit_v1 | Commit_v2 -> progress_commits (); check ~kind:`Commit ~offset ~length k | Dangling_parent_commit -> assert false in let result = if auto_repair then try Index.filter index (fun binding -> match f binding with | Ok () -> true | Error `Wrong_hash -> raise Cannot_fix | Error `Absent_value -> incr nb_absent; false); if !nb_absent = 0 then Ok `No_error else Ok (`Fixed !nb_absent) with Cannot_fix -> Error (`Cannot_fix "Not implemented") else ( Index.iter (fun k v -> match f (k, v) with | Ok () -> () | Error `Wrong_hash -> incr nb_corrupted | Error `Absent_value -> incr nb_absent) index; if !nb_absent = 0 && !nb_corrupted = 0 then Ok `No_error else Error (`Corrupted (!nb_corrupted + !nb_absent))) in Utils.Object_counter.finalise counter; result let check_minimal ?ppf ~pred ~iter ~check ~recompute_hash t = let ppf = ppf_or_null ppf in Fmt.pf ppf "Running the integrity_check.\n%!"; let errors = ref [] in let counter, (progress_contents, progress_nodes, progress_commits) = Utils.Object_counter.start ppf in let pp_hash = Irmin.Type.pp X.Hash.t in let equal_hash = Irmin.Type.(unstage (equal X.Hash.t)) in let add_error err hash = let msg = match err with | `Wrong_hash -> Fmt.str "Wrong_hash %a" pp_hash hash | `Absent_value -> Fmt.str "Absent_value for hash %a" pp_hash hash in errors := msg :: !errors in let check_contents key = match Pack_key.inspect key with | Indexed _hash -> (* TODO: The goal here is to check a "one commit" store, generated by a gc, in which indexed keys cannot occur. We might want to extends this to stores that have both indexed and direct keys. *) Lwt.fail_with "Not supported for stores which have entries obtained with irmin < \ 3.0. If all entries were added with irmin < 3.0, please use \ [integrity_check] instead." | Direct { offset; length; hash; _ } -> ( let result = check ~offset ~length hash in match result with | Ok () -> Lwt.return_unit | Error err -> add_error err hash; Lwt.return_unit) in (* Commits are read from disk and checked by the [find] function in [pred]. We need to explicitly check the contents and the nodes. *) let contents key = progress_contents (); check_contents key in let pred_node repo key = try X.Node.find (X.Repo.node_t repo) key >|= function | None -> Fmt.failwith "node with hash %a not found" pp_hash (XKey.to_hash key) | Some v -> let preds = pred v in List.rev_map (function | s, `Inode x -> assert (s = None); `Node x | _, `Node x -> `Node x | _, `Contents x -> `Contents x) preds with _exn -> add_error `Wrong_hash (XKey.to_hash key); Lwt.return [] in let check_nodes key = X.Node.find (X.Repo.node_t t) key >|= function | None -> Fmt.failwith "node with hash %a not found" pp_hash (XKey.to_hash key) | Some v -> let h = XKey.to_hash key in let h' = recompute_hash v in if not (equal_hash h h') then add_error `Wrong_hash h in let node key = progress_nodes (); check_nodes key in (* Only visit the nodes of the commits and not the parents of the commit. *) let pred_commit repo k = try progress_commits (); X.Commit.find (X.Repo.commit_t repo) k >|= function | None -> [] | Some c -> let node = X.Commit.Val.node c in [ `Node node ] with _exn -> add_error `Wrong_hash (XKey.to_hash k); Lwt.return [] in let+ () = iter ~contents ~node ~pred_node ~pred_commit t in Utils.Object_counter.finalise counter; if !errors = [] then Ok `No_error else Fmt.kstr (fun x -> Error (`Cannot_fix x)) "Inconsistencies found: %a" Fmt.(list ~sep:comma string) !errors let check_inodes ?ppf ~iter ~pred ~check t = let ppf = ppf_or_null ppf in Fmt.pf ppf "Check integrity for inodes.\n%!"; let counter, (_, progress_nodes, progress_commits) = Utils.Object_counter.start ppf in let errors = ref [] in let pred_node repo key = Lwt.catch (fun () -> pred repo key) (fun _ -> errors := "Error in repo iter" :: !errors; Lwt.return []) in let node k = progress_nodes (); check k >|= function Ok () -> () | Error msg -> errors := msg :: !errors in let commit _ = progress_commits (); Lwt.return_unit in let+ () = iter ~pred_node ~node ~commit t in Utils.Object_counter.finalise counter; if !errors = [] then Ok `No_error else Fmt.kstr (fun x -> Error (`Cannot_fix x)) "Inconsistent inodes found %a" Fmt.(list ~sep:comma string) !errors end module Stats (S : sig type step val step_t : step Irmin.Type.t module Hash : Irmin.Hash.S end) = struct type step = Node of S.step | Inode type path = step list module Metrics : sig type max type node val max_length : node -> int val all_paths : node -> path list val mp : node -> max val maximum : max -> int val maximal_count : max -> int val representative : max -> path val v : ?maximal_count:int -> maximum:int -> representative:path -> unit -> max val empty_root_node : node val empty_node : node val empty_max : max val update_node : node -> node -> step -> int -> node val update_width : node -> int -> max -> max val pp : max Fmt.t val pp_all_paths : node Fmt.t end = struct type max = { maximum : int; maximal_count : int; representative : path } type node = { all_paths : path list; (* All paths to a node. *) max_length : int; (* The max length of a path to a node. *) mp : max; (* The maximum size of a membership proof: the number of siblings at every level along the path. *) } let max_length { max_length; _ } = max_length let all_paths { all_paths; _ } = all_paths let mp { mp; _ } = mp let maximum { maximum; _ } = maximum let representative { representative; _ } = representative let maximal_count { maximal_count; _ } = maximal_count let v ?(maximal_count = 1) ~maximum ~representative () = { maximum; maximal_count; representative } let empty_max = { maximum = 0; maximal_count = 0; representative = [] } let empty_root_node = let mp = empty_max in { all_paths = [ [] ]; max_length = 0; mp } let empty_node = let mp = empty_max in { all_paths = []; max_length = 0; mp } let incr ({ maximal_count; _ } as t) = { t with maximal_count = maximal_count + 1 } let update_mp stat_k stat_pred step nb_siblings = let mp = stat_k.maximum + nb_siblings in if stat_pred.maximum > mp then stat_pred else if stat_pred.maximum = mp && not (mp = 0) then incr stat_pred else let path_to_k = stat_k.representative in let new_path_to_pred = step :: path_to_k in v ~maximum:mp ~representative:new_path_to_pred () let update_width stat_k width_k max_width = if max_width.maximum > width_k then max_width else if max_width.maximum = width_k then incr max_width else let representative = List.hd stat_k.all_paths in v ~maximum:width_k ~representative () let update_path paths_to_k step_k_to_n paths_to_n = let new_paths_to_n = List.rev_map (fun rev_path -> step_k_to_n :: rev_path) paths_to_k in List.rev_append new_paths_to_n paths_to_n let update_node stat_k stat_pred step_k_to_pred nb_siblings = let all_paths, max_length = match step_k_to_pred with | Inode -> (* Do not update if pred is an inode. *) (stat_k.all_paths, stat_k.max_length) | Node _ -> let paths_to_pred = update_path stat_k.all_paths step_k_to_pred stat_pred.all_paths in let length = (* The new current length to pred. *) let lk = stat_k.max_length + 1 in (* The previous max length to pred. *) let ln = stat_pred.max_length in max lk ln in (paths_to_pred, length) in let mp = update_mp stat_k.mp stat_pred.mp step_k_to_pred nb_siblings in let stat_pred' = { all_paths; max_length; mp } in stat_pred' let pp_step ppf = function | Inode -> Fmt.pf ppf "-" | Node x -> Fmt.pf ppf "%a" (Irmin.Type.pp S.step_t) x let pp_path = Fmt.list ~sep:(Fmt.any "/") pp_step let pp_all_paths fmt stats = List.iter (fun l -> Fmt.pf fmt "%a\n" pp_path (List.rev l)) stats.all_paths let pp = let open Fmt.Dump in record [ field "maximum" (fun t -> t.maximum) Fmt.int; field "maximal_count" (fun t -> t.maximal_count) Fmt.int; field "representative" (fun t -> List.rev t.representative) pp_path; ] end type t = { visited : (S.Hash.t, Metrics.node) Hashtbl.t; mutable max_width : Metrics.max; mutable max_mp : int; mutable max_length : int; } let v () = let visited = Hashtbl.create 100 in let max_width = Metrics.empty_max in { visited; max_width; max_length = 0; max_mp = 0 } let get t k = try Hashtbl.find t.visited k with Not_found -> Metrics.empty_node let visit_node t k preds ~nb_children ~width = let preds = List.map (function None, x -> (Inode, x) | Some s, x -> (Node s, x)) preds in let stat_k = get t k in let visit step pred = let stat_pred = get t pred in let nb_siblings = nb_children - 1 in let stat_pred' = Metrics.update_node stat_k stat_pred step nb_siblings in Hashtbl.replace t.visited pred stat_pred' in let () = List.iter (function | Inode, `Inode x -> visit Inode x | Node s, `Node x -> visit (Node s) x | Node s, `Contents x -> visit (Node s) x | _ -> assert false) preds in (* Once we updated its preds we can remove the node from the table. If its a max width, we update the max_width stats. *) Hashtbl.remove t.visited k; t.max_width <- Metrics.update_width stat_k width t.max_width let visit_commit t root_node = let stat = Metrics.empty_root_node in Hashtbl.replace t.visited root_node stat (* Update the max length and max_mp while traversing the contents. *) let visit_contents t k = let stat = get t k in let max_length = Metrics.max_length stat in if max_length > t.max_length then t.max_length <- max_length; let maximum = Metrics.mp stat |> Metrics.maximum in if maximum > t.max_mp then t.max_mp <- maximum let pp_results ~dump_blob_paths_to t = [%log.app "Max width = %a" Metrics.pp t.max_width]; let maximal_count, representative = Hashtbl.fold (fun _ (stat : Metrics.node) ((counter, _) as acc) -> let maximum = Metrics.mp stat |> Metrics.maximum in if maximum = t.max_mp then let maximal_count = Metrics.mp stat |> Metrics.maximal_count in let counter' = counter + maximal_count in let repr = Metrics.mp stat |> Metrics.representative in (counter', repr) else acc) t.visited (0, []) in let max_mp = Metrics.v ~maximal_count ~representative ~maximum:t.max_mp () in [%log.app "Max number of path-adjacent nodes = %a" Metrics.pp max_mp]; (* Count all paths that have max length. *) let maximal_count, representative = Hashtbl.fold (fun _ (stat : Metrics.node) acc -> if Metrics.max_length stat = t.max_length then List.fold_left (fun ((counter, _) as acc) l -> if List.length l = t.max_length then (counter + 1, l) else acc) acc (Metrics.all_paths stat) else acc) t.visited (0, []) in let max_length = Metrics.v ~maximal_count ~representative ~maximum:t.max_length () in [%log.app "Max length = %a" Metrics.pp max_length]; match dump_blob_paths_to with | None -> () | Some filename -> let chan = open_out filename in let fmt = Format.formatter_of_out_channel chan in Hashtbl.iter (fun _ stats -> Metrics.pp_all_paths fmt stats) t.visited; Fmt.flush fmt (); close_out chan end
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