package bistro
A library to build and run distributed scientific workflows
Install
Dune Dependency
Authors
Maintainers
Sources
bistro-0.6.0.tbz
sha256=146177faaaa9117a8e2bf0fd60cb658662c0aa992f35beb246e6fd0766050e66
sha512=553fe0c20f236316449b077a47e6e12626d193ba1916e9da233e5526dd39090e8677277e1c79baace3bdc940cb009f25431730a8efc00ae4ed9cc42a0add9609
doc/src/bistro.multinode/bistro_multinode.ml.html
Source file bistro_multinode.ml
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open Core_kernel open Bistro_engine open Lwt.Infix module Unix = Caml_unix type job = | Plugin of { workflow_id : string ; f : unit -> unit ; } | Shell_command of { workflow_id : string ; cmd : Shell_command.t ; } type client_id = Client_id of string type _ api_request = | Subscript : { np : int ; mem : int } -> client_id api_request | Get_job : { client_id : string } -> job option api_request | Plugin_result : { client_id : string ; workflow_id : string ; result : (unit, string) Result.t ; } -> unit api_request | Shell_command_result : { client_id : string ; workflow_id : string ; result : (int * bool, string) Result.t ; } -> unit api_request module Client = struct type t = { np : int ; mem : int ; hostname : string ; port : int ; } let with_connection { hostname ; port ; _ } ~f = Lwt_io.with_connection Unix.(ADDR_INET (inet_addr_of_string hostname, port)) f let send_request x (msg : 'a api_request) : 'a Lwt.t = with_connection x ~f:(fun (ic, oc) -> Lwt_io.write_value oc msg >>= fun () -> Lwt_io.flush oc >>= fun () -> Lwt_io.read_value ic ) let main ~np ~mem ~hostname ~port () = let mem = mem * 1024 in let client = { np ; mem ; hostname ; port } in let stop_var = Lwt_mvar.create_empty () in send_request client (Subscript { np ; mem }) >>= fun (Client_id client_id) -> let job_thread = function | Plugin { workflow_id ; f } -> Local_backend.eval () () f () >>= fun result -> send_request client (Plugin_result { client_id ; workflow_id ; result }) | Shell_command { workflow_id ; cmd } -> Lwt.catch (fun () -> Shell_command.run cmd >|= Result.return) (fun exn -> Lwt_result.fail (Exn.to_string exn)) >>= fun result -> send_request client (Shell_command_result { client_id ; workflow_id ; result }) in let rec loop () = Lwt.pick [ (send_request client (Get_job { client_id }) >|= fun x -> `New_job x) ; Lwt_mvar.take stop_var >|= fun () -> `Stop ] >>= function | `New_job None | `Stop -> Lwt.return () | `New_job (Some job) -> Lwt.async (fun () -> job_thread job) ; loop () in loop () let command = let open Command.Let_syntax in Command.basic ~summary:"Bistro client" [%map_open let np = flag "--np" (required int) ~doc:"INT Number of available cores" and mem = flag "--mem" (required int) ~doc:"INT Available memory (in GB)" and hostname = flag "--hostname" (required string) ~doc:"ADDR Bistro server address" and port = flag "--port" (required int) ~doc:"INT Bistro server port" in fun () -> main ~np ~mem ~hostname ~port () |> Lwt_main.run ] end module Server = struct module Backend = struct type job_waiter = | Waiting_shell_command of { workflow_id : string ; cmd : Shell_command.t ; waiter : (int * bool, string) result Lwt.u ; } | Waiting_plugin of { workflow_id : string ; f : unit -> unit ; waiter : (unit, string) result Lwt.u ; } type worker = Worker of { id : string ; np : int ; mem : int ; mutable available_resource : Allocator.resource ; pending_jobs : job_waiter Lwt_queue.t ; running_jobs : job_waiter String.Table.t ; } module Worker_allocator = struct type t = { mutable available : Allocator.resource String.Table.t ; mutable waiters : ((int * int) * (string * Allocator.resource) Lwt.u) list ; } let create () = { available = String.Table.create () ; waiters = [] ; } let search (type s) (table : s String.Table.t) ~f = let module M = struct exception Found of string * s end in try String.Table.fold table ~init:() ~f:(fun ~key ~data () -> if f ~key ~data then raise (M.Found (key, data))) ; None with M.Found (k, v) -> Some (k, v) let allocation_pass pool = let remaining_waiters = List.filter_map pool.waiters ~f:(fun ((np, mem), u as elt) -> let allocation_attempt = search pool.available ~f:(fun ~key:_ ~data:(Resource curr) -> curr.np >= np && curr.mem >= mem ) in match allocation_attempt with | None -> Some elt | Some (worker_id, (Resource curr)) -> String.Table.set pool.available ~key:worker_id ~data:(Resource { np = curr.np - np ; mem = curr.mem - mem }) ; Lwt.wakeup u (worker_id, Resource { np ; mem }) ; None ) in pool.waiters <- remaining_waiters let request pool (Allocator.Request { np ; mem }) = let t, u = Lwt.wait () in let waiters = ((np, mem), u) :: pool.waiters |> List.sort ~compare:(fun (x, _) (y,_) -> Poly.compare y x) in pool.waiters <- waiters ; allocation_pass pool ; t let add_worker pool (Worker { id ; np ; mem ; _ }) = match String.Table.add pool.available ~key:id ~data:(Allocator.Resource { np ; mem }) with | `Ok -> allocation_pass pool | `Duplicate -> failwith "A worker has been added twice" let release pool worker_id (Allocator.Resource { np ; mem }) = String.Table.update pool.available worker_id ~f:(function | None -> failwith "Tried to release resources of inexistent worker" | Some (Resource r) -> Resource { np = r.np + np ; mem = r.mem + mem } ) end type token = { worker_id : string ; workflow_id : string ; } type state = { workers : worker String.Table.t ; alloc : Worker_allocator.t ; } type event = [ | `Stop | `New_worker ] type t = { server : Lwt_io.server ; state : state ; events : event Lwt_react.event ; send_event : event -> unit ; stop_signal : unit Lwt_condition.t ; server_stop : unit Lwt.t ; logger : Logger.t ; db : Db.t ; } let new_id = let c = ref 0 in fun () -> incr c ; sprintf "w%d" !c let workflow_id_of_job_waiter = function | Waiting_plugin wp -> wp.workflow_id | Waiting_shell_command wsc -> wsc.workflow_id let job_of_job_waiter = function | Waiting_plugin { f ; workflow_id ; _ } -> Plugin { f ; workflow_id } | Waiting_shell_command { cmd ; workflow_id ; _ } -> Shell_command { cmd ; workflow_id } let create_worker ~np ~mem id = Worker { id ; np ; mem ; available_resource = Allocator.Resource { np ; mem } ; pending_jobs = Lwt_queue.create () ; running_jobs = String.Table.create () ; } let create_state () = { workers = String.Table.create () ; alloc = Worker_allocator.create () ; } let server_api : type s. (Logger.event -> unit) -> stop_signal:unit Lwt_condition.t -> state -> s api_request -> s Lwt.t = fun log ~stop_signal state msg -> match msg with | Subscript { np ; mem } -> let id = new_id () in let w = create_worker ~np ~mem id in String.Table.set state.workers ~key:id ~data:w ; Worker_allocator.add_worker state.alloc w ; log (Logger.Debug (sprintf "new worker %s" id)) ; Lwt.return (Client_id id) | Get_job { client_id } -> ( match String.Table.find state.workers client_id with | None -> Lwt.return None | Some (Worker worker) -> Lwt.choose [ (Lwt_queue.pop worker.pending_jobs >|= fun x -> `Job x) ; (Lwt_condition.wait stop_signal >|= fun () -> `Stop) ; ] >>= function | `Job wp -> let workflow_id = workflow_id_of_job_waiter wp in String.Table.set worker.running_jobs ~key:workflow_id ~data:wp ; Lwt.return (Some (job_of_job_waiter wp)) | `Stop -> Lwt.return None ) | Plugin_result r -> let Worker worker = String.Table.find_exn state.workers r.client_id in Lwt.return ( match String.Table.find_exn worker.running_jobs r.workflow_id with | Waiting_plugin wp -> Lwt.wakeup wp.waiter r.result | Waiting_shell_command _ -> assert false (* should never happen *) ) | Shell_command_result r -> let Worker worker = String.Table.find_exn state.workers r.client_id in Lwt.return ( match String.Table.find_exn worker.running_jobs r.workflow_id with | Waiting_plugin _ -> assert false (* should never happen *) | Waiting_shell_command wp -> Lwt.wakeup wp.waiter r.result ) let server_handler log ~stop_signal state _ (ic, oc) = Lwt_io.read_value ic >>= fun msg -> server_api log ~stop_signal state msg >>= fun res -> Lwt_io.write_value oc res ~flags:[Closures] >>= fun () -> Lwt_io.flush oc >>= fun () -> Lwt_io.close ic >>= fun () -> Lwt_io.close oc let create ?(loggers = []) ~port db = Lwt_unix.gethostname () >>= fun hostname -> Lwt_unix.gethostbyname hostname >>= fun h -> let sockaddr = Unix.ADDR_INET (h.Unix.h_addr_list.(0), port) in let state = create_state () in let logger = Logger.tee loggers in let log event = logger#event db (Unix.gettimeofday ()) event in let stop_signal = Lwt_condition.create () in Lwt_io.establish_server_with_client_address sockaddr (server_handler log ~stop_signal state) >>= fun server -> let events, send_event = Lwt_react.E.create () in let server_stop = Lwt_condition.wait stop_signal >>= fun () -> Lwt_io.shutdown_server server in Lwt.return { events ; send_event ; stop_signal ; server_stop ; server ; state ; logger = Logger.tee loggers ; db ; } let log ?(time = Unix.gettimeofday ()) backend event = backend.logger#event backend.db time event let request_resource backend req = Worker_allocator.request backend.state.alloc req >|= fun (worker_id, resource) -> String.Table.find_exn backend.state.workers worker_id, resource let release_resource backend worker_id res = Worker_allocator.release backend.state.alloc worker_id res let build_trace backend w requirement perform = let ready = Unix.gettimeofday () in log ~time:ready backend (Logger.Workflow_ready w) ; request_resource backend requirement >>= fun (Worker worker, resource) -> let open Eval_thread.Infix in let start = Unix.gettimeofday () in log ~time:start backend (Logger.Workflow_started (w, resource)) ; let token = { worker_id = worker.id ; workflow_id = Bistro_internals.Workflow.id w } in perform token resource >>= fun details -> let _end_ = Unix.gettimeofday () in log ~time:_end_ backend (Logger.Workflow_ended { details ; start ; _end_ }) ; release_resource backend worker.id resource ; Eval_thread.return ( Execution_trace.Run { ready ; start ; _end_ ; details } ) (* | Error `Resource_unavailable -> * let msg = "No worker with enough resource" in * log backend (Logger.Workflow_allocation_error (w, msg)) ; * wait_for_new_worker backend >>= fun () -> * loop () *) let eval backend { worker_id ; workflow_id } f x = let Worker worker = String.Table.find_exn backend.state.workers worker_id in let f () = f x in let t, u = Lwt.wait () in let job_waiter = Waiting_plugin { waiter = u ; f ; workflow_id } in Lwt_queue.push worker.pending_jobs job_waiter ; t let run_shell_command backend { worker_id ; workflow_id } cmd = let Worker worker = String.Table.find_exn backend.state.workers worker_id in let t, u = Lwt.wait () in let job = Waiting_shell_command { waiter = u ; cmd ; workflow_id } in Lwt_queue.push worker.pending_jobs job ; t let stop backend = Lwt_condition.broadcast backend.stop_signal () ; Lwt.return () end module Scheduler = Scheduler.Make(Backend) type t = Scheduler.t let create ?allowed_containers ?loggers ?collect ?(port = 6666) db = Backend.create ?loggers ~port db >|= fun backend -> Scheduler.create ?allowed_containers ?loggers ?collect backend db let start sched = Scheduler.start sched let stop sched = Scheduler.stop sched let eval sched w = Scheduler.eval sched w let simple_app ?allowed_containers ?loggers ?collect ?port ?(db = "_bistro") w = let t = create ?allowed_containers ?loggers ?collect ?port (Db.init_exn db) >>= fun server -> start server ; eval server w >|= ( function | Ok _ -> () | Error e -> print_endline @@ Scheduler.error_report server e ) >>= fun () -> stop server in Lwt_main.run t let simple_command ~summary w = let open Command.Let_syntax in Command.basic ~summary [%map_open let port = flag "--port" (required int) ~doc:"INT Port" and verbose = flag "--verbose" no_arg ~doc:" Display more info" in let loggers = if verbose then [ Bistro_utils.Console_logger.create () ] else [] in fun () -> simple_app ~port ~loggers w ] end
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