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Launcher plugins

Source: vignettes/plugins.Rmd
plugins.Rmd

About

crew lets users write custom launchers for different types of workers that connect over the local network. The crew.cluster package already has plugins for traditional high-performance computing schedulers (SLURM, SGE, LSF, and PBS/TORQUE).

📣 Request for community contributions 📣

The launcher plugin framework aims to extend crew to modern platforms and services like Google Cloud Run, Kubernetes, and beyond. At the time of writing, plugins for cloud computing do not yet exist. So if you have access to these services and know how to use them, please consider contributing a package with plugins of your own. The maintainer of crew would love to work with you!

How it works

These launcher plugins need not become part of the crew package itself. You can write your plugin in a simple R script, or you write it in a custom R package that depends on crew. Published packages with launcher plugins are powerful extensions that enhance crew for the entire open-source community. See R Packages by Hadley Wickham and Jenny Bryan for how to write an R package.

Scope

This vignette demonstrates how to write a crew launcher plugin. It assumes prior familiarity with R6 classes and the computing platform of your plugin.

Implementation

To create your own launcher plugin, write an R6 subclass of crew_class_launcher with a launch_worker() method analogous the one in the local process launcher. launch_worker() must accept the same arguments as the local process launch_worker() method, generate a call to crew_worker(), and then submit a new job or process to run that call.

Network

Each worker that launches must be able to dial into the client over the local network. The host argument of crew_client() provides the local IP address, and the port argument provides the TCP port. The controller helper function (see below) should expose arguments host and port in order to solve potential network problems like this one.

By default, host is the local IP address. crew assumes the local network is secure. Please take the time to assess the network security risks of your computing environment. Use at your own risk.

Termination

We recommend you implement an optional terminate_worker() method. Although mirai has its own way of terminating workers, it only works if the worker already connected, and it cannot reach workers that fail to connect and hang in a crashed state. An optional terminate_worker() method in your crew launcher plugin is extra assurance that these workers will exit.

If you implement a custom terminate_worker() method, it must not throw an error (and should not throw a warning or message) if the worker is already terminated. In addition, it must accept a handle that identifies the worker, and this handle must be the return value of the previous call to launch_worker(). A handle can be any kind of R object: a process ID, a job name, an R6 object returned by callr::r_bg(), etc.

Example

The following is a custom custom launcher class whose workers are local R processes on Unix-like systems.

custom_launcher_class <- R6::R6Class(
  classname = "custom_launcher_class",
  inherit = crew::crew_class_launcher,
  public = list(
    launch_worker = function(call, name, launcher, worker, instance) {
      bin <- file.path(R.home("bin"), "R")
      processx::process$new(
        command = bin,
        args = c("-e", call),
        cleanup = FALSE
      )
    },
    terminate_worker = function(handle) {
      handle$signal(crew::crew_terminate_signal())
    }
  )
)

Inside launch_worker(), the processx::process$new(command = bin, args = c("-e", call)) line runs the crew_worker() call in an external R process. This process runs in the background, connects back to crew and mirai over the local network, and accepts the tasks you push to the controller. processx::process$new() also returns a handle which the terminate_worker() method can use to force-terminate the process if appropriate. mirai has its own way to terminate workers, so a terminate_worker() method is not strictly required, but it is a useful safeguard in case a worker hangs in a crashed state before it establishes a connection.

Every launch_worker() method must accept arguments call, launcher, worker, and instance. The method does not actually need to use all these arguments, but they must be present in the function signature.

  • call: text string with a call to crew_worker().
  • name: text string with an informative name for the worker instance.
  • launcher: text string with the name of the launcher.
  • worker: positive integer index of the worker. Ranges from 1 to the maximum number of simultaneous workers configured for the controller.
  • instance: text string with the instance of the worker in the launcher at the given worker index.

To see what the call object looks like, create a new launcher and run the call() method.

library(crew)
launcher <- crew_launcher_local()
launcher$call(
  socket = "ws://127.0.0.1:5000/3/aa9c59ea",
  launcher = "my_launcher",
  worker = 3L,
  instance = "aa9c59ea"
)
#> [1] "crew::crew_worker(settings = list(url = \"ws://127.0.0.1:5000/3/aa9c59ea\", autoexit = 15L, cleanup = 1L, output = TRUE, maxtasks = Inf, idletime = Inf, walltime = Inf, timerstart = 0L, tls = NULL, rs = NULL), launcher = \"my_launcher\", worker = 3L, instance = \"aa9c59ea\")"

Helper

It is useful to have a helper function that creates controllers with your custom launcher. It should:

  1. Accept all the same arguments as crew_controller_local().
  2. Create a client object using crew_client().
  3. Create a launcher object with the new() method of your custom launcher class.
  4. Create a new controller using crew_controller().
  5. Scan the controller for obvious errors using the validate() method of the controller.

Feel free to borrow from the crew_controller_local() source code. For packages, you can use the @inheritParams roxygen2 tag to inherit the documentation of all the arguments instead of writing it by hand. You may want to adjust the default arguments based on the specifics of your platform, especially seconds_launch if workers take a long time to launch.

#' @title Create a controller with the custom launcher.
#' @export
#' @description Create an `R6` object to submit tasks and
#'   launch workers.
#' @inheritParams crew::crew_controller_local
crew_controller_custom <- function(
  name = "custom controller name",
  workers = 1L,
  host = NULL,
  port = NULL,
  tls = crew::crew_tls(),
  seconds_interval = 0.5,
  seconds_timeout = 30,
  seconds_launch = 30,
  seconds_idle = Inf,
  seconds_wall = Inf,
  tasks_max = Inf,
  tasks_timers = 0L,
  reset_globals = TRUE,
  reset_packages = FALSE,
  reset_options = FALSE,
  garbage_collection = FALSE,
  launch_max = 5L
) {
  client <- crew::crew_client(
    name = name,
    workers = workers,
    host = host,
    port = port,
    tls = tls,
    seconds_interval = seconds_interval,
    seconds_timeout = seconds_timeout
  )
  launcher <- custom_launcher_class$new(
    name = name,
    seconds_interval = seconds_interval,
    seconds_timeout = seconds_timeout,
    seconds_launch = seconds_launch,
    seconds_idle = seconds_idle,
    seconds_wall = seconds_wall,
    tasks_max = tasks_max,
    tasks_timers = tasks_timers,
    reset_globals = reset_globals,
    reset_packages = reset_packages,
    reset_options = reset_options,
    garbage_collection = garbage_collection,
    launch_max = launch_max,
    tls = tls
  )
  controller <- crew::crew_controller(client = client, launcher = launcher)
  controller$validate()
  controller
}

Informal testing

Before you begin testing, please begin monitoring local processes and remote jobs on your platform. In the case of the above crew launcher which only creates local processes, it is sufficient to start htop and filter for R processes, or launch a new R session to monitor the process table from ps::ps(). However, for more ambitious launchers that submit workers to e.g. AWS Batch, you may need to open the CloudWatch dashboard, then view the AWS billing dashboard after testing.

When you are ready to begin testing, try out the example in the README, but use your your custom controller helper instead of crew_controller_local().

First, create and start a controller. You may wish to monitor local processes on your computer to make sure the mirai dispatcher starts.

library(crew)
controller <- crew_controller_custom(workers = 2)
controller$start()

Try pushing a task that gets the local IP address and process ID of the worker instance.

controller$push(
  name = "get worker IP address and process ID",
  command = paste(getip::getip(type = "local"), ps::ps_pid())
)

Wait for the task to complete and look at the result.

controller$wait()
result <- controller$pop()
result$result[[1]]
#> [1] "192.168.0.2 27336"

Please use the result to verify that the task really ran on a worker as intended. The process ID above should agree with the one from the handle (except on Windows because the actual R process may be different from the R.exe process created first). In addition, if the worker is running on a different computer, the worker IP address should be different than the local IP address. Since our custom launcher creates local processes, the IP addresses are the same in this case, but they should be different for a SLURM or AWS Batch launcher.

getip::getip(type = "local")
#> "192.168.0.2"
controller$launcher$workers$handle[[1]]$get_pid()
#> [1] 27336

If you did not set any timeouts or task limits, the worker that ran the task should still be online. The other worker had no tasks, so it did not need to launch.

controller$client$summary()
#> # A tibble: 2 × 6
#>   worker online instances assigned complete socket
#>    <int> <lgl>      <int>    <int>    <int> <chr>
#> 1      1 TRUE           1        1        1 ws://10.0.0.32:50258/1/571bcda7…
#> 2      2 FALSE          0        0        0 ws://10.0.0.32:50258/2/daf88d6e…

When you are done, terminate the controller. This terminates the mirai dispatcher process and the crew workers.

controller$terminate()

Finally, use the process monitoring interface of your computing platform or operating system to verify that all mirai dispatchers and crew workers are terminated.

Load testing

If the informal testing succeeded, we recommend you scale up testing to more ambitious scenarios. As one example, you can test that your workers can auto-scale and quickly churn through a large number of tasks.

library(crew)
controller <- crew_controller_custom(
  seconds_idle = 2L,
  workers = 2L
)
controller$start()
# Push 100 tasks
for (index in seq_len(100L)) {
  name <- paste0("task_", index)
  controller$push(name = name, command = index, data = list(index = index))
  message(paste("push", name))
}
# Wait for the tasks to complete.
controller$wait()
# Wait for the workers to idle out and exit on their own.
crew_retry(
  ~all(controller$client$summary()$online == FALSE),
  seconds_interval = 1,
  seconds_timeout = 60
)
# Do the same for 100 more tasks.
for (index in (seq_len(100L) + 100L)) {
  name <- paste0("task_", index)
  controller$push(name = name, command = index, data = list(index = index))
  message(paste("push", name))
}
controller$wait()
crew_retry(
  ~all(controller$client$summary()$online == FALSE),
  seconds_interval = 1,
  seconds_timeout = 60
)
# Collect the results.
results <- NULL
while (!is.null(result <- controller$pop(scale = FALSE))) {
  if (!is.null(result)) {
    results <- dplyr::bind_rows(results, result)
  }
}
# Check the results
all(sort(unlist(results$result)) == seq_len(200L))
#> [1] TRUE
# View worker and task summaries.
controller$summary()
controller$schedule$summary()
controller$launcher$summary()
controller$schedule$summary()
# Terminate the controller.
controller$terminate()
# Now outside crew, verify that the mirai dispatcher
# and crew workers successfully terminated.

Asynchrony

Depending on the launcher plugin, worker launches and terminations can be time-consuming. For example, each HTTP request to AWS Batch can take a couple seconds, and this latency becomes burdensome when it there are hundreds of workers. Fortunately, crew launchers can run launches and terminations asynchronously. As a launcher plugin developer, all you need to do is:

  1. Expose the processes argument of launcher$new(). The processes field sets how many mirai daemons run locally and churn through quick requests.
  2. Execute launches and terminations inside self$async$eval(), and return the resulting value from launch_worker() and terminate_worker().

Let’s demonstrate on the simple processx example. The use case itself may silly because the workers are local processx processes, but the same principles apply if you replace processx with a cloud computing service like AWS Batch and you replace the process IDs with AWS Batch job IDs.

Here is what the launcher class looks like. We work with processx PIDs directly because they are light and easy to send to local async mirai daemons. The self$async$eval() function accepts R code, data, and packages to run a quick local asynchronous task, and it returns a mirai::mirai() task object as the handle. handle$data returns the results if available, and crew uses mirai::call_mirai() to make sure any tasks submitted by launch_worker() have resolved before they are used by terminate_worker().

async_launcher_class <- R6::R6Class(
  classname = "custom_launcher_class",
  inherit = crew::crew_class_launcher,
  public = list(
    launch_worker = function(call, name, launcher, worker, instance) {
      self$async$eval(
        command = list(pid = process$new(bin, args = c("-e", call))$get_pid()),
        data = list(bin = file.path(R.home("bin"), "R"), call = call),
        packages = "processx"
      )
    },
    terminate_worker = function(handle) {
      self$async$eval(
        command = crew::crew_terminate_process(handle$data$pid),
        data = list(pid = handle$data$pid)
      )
    }
  )
)

The controller helper includes a processes argument which sets how many asynchronous mirai daemons to create. Set processes to NULL to disable async and use it like an ordinary synchronous controller.

crew_controller_async <- function(
  name = "async controller name",
  workers = 1L,
  host = "127.0.0.1",
  port = NULL,
  tls = crew::crew_tls(mode = "none"),
  seconds_interval = 0.5,
  seconds_timeout = 30,
  seconds_launch = 30,
  seconds_idle = Inf,
  seconds_wall = Inf,
  tasks_max = Inf,
  tasks_timers = 0L,
  reset_globals = TRUE,
  reset_packages = FALSE,
  reset_options = FALSE,
  garbage_collection = FALSE,
  launch_max = 5L,
  processes = NULL # Number of local async daemons for worker launches etc.
) {
  client <- crew::crew_client(
    name = name,
    workers = workers,
    host = host,
    port = port,
    tls = tls,
    seconds_interval = seconds_interval,
    seconds_timeout = seconds_timeout
  )
  launcher <- async_launcher_class$new(
    name = name,
    seconds_interval = seconds_interval,
    seconds_launch = seconds_launch,
    seconds_idle = seconds_idle,
    seconds_wall = seconds_wall,
    tasks_max = tasks_max,
    tasks_timers = tasks_timers,
    reset_globals = reset_globals,
    reset_packages = reset_packages,
    reset_options = reset_options,
    garbage_collection = garbage_collection,
    launch_max = launch_max,
    tls = tls,
    processes = processes
  )
  controller <- crew::crew_controller(
    client = client,
    launcher = launcher
  )
  controller$validate()
  controller
}

Creating a controller is the same as before, except the user sets both the workers and processes arguments. Remember, these are two different things: workers is the number of serious workers that run serious tasks from push(), whereas processes is the number of mirai daemons that asynchronously launch and terminate those serious workers. Workers may or may not be local, but processes are always local.

async_controller <- crew_controller_async(workers = 12, processes = 4)

async_controller$start() automatically launches 4 local processes to asynchronously auto-scale the workers, and async_controller$terminate() automatically shuts down those 4 processes. Beyond that, usage is the exactly same as before.

Managing workers

Usually crew workers terminate themselves when the parent R session exits or the controller terminates, but under rare circumstances they may continue running. To help users of your plugin monitor and manually terminate workers, please consider implementing job management utilities to go with your launcher plugin. As described in the introduction vignette, crew_monitor_local() helps manually list and terminate local processes relevant to crew. Source code for the local monitor is on GitHub, methods are documented in the package website, and example usage is in the introduction vignette. In addition, crew_monitor_aws_batch() implements several methods for listing and terminating AWS Batch jobs, as well as viewing CloudWatch logs.

The source code for the local monitor is copied below:

crew_monitor_local <- function() {
  crew_class_monitor_local$new()
}

crew_class_monitor_local <- R6::R6Class(
  classname = "crew_class_monitor_local",
  cloneable = FALSE,
  public = list(
    dispatchers = function() {
      crew_monitor_pids(pattern = "mirai::dispatcher")
    },
    daemons = function() {
      crew_monitor_pids(pattern = "mirai::daemon")
    },
    workers = function() {
      crew_monitor_pids(pattern = "crew::crew_worker")
    },
    terminate = function(pids) {
      lapply(as.integer(pids), crew::crew_terminate_process)
    }
  )
)

crew_monitor_pids <- function(pattern) {
  processes <- ps::ps()
  commands <- map(
    processes$ps_handle,
    ~tryCatch(ps::ps_cmdline(.x), error = function(condition) "")
  )
  filter <- grepl(pattern = pattern, x = as.character(commands), fixed = TRUE)
  as.integer(sort(processes$pid[filter]))
}

Example usage:

monitor <- crew_monitor_local()
monitor$dispatchers() # List PIDs of all local {mirai} dispatcher processes.
#> [1] 31215
monitor$daemons()
#> integer(0)
monitor$workers()
#> [1] 57001 57002
monitor$terminate(pid = c(57001, 57002))
monitor$workers()
#> integer(0)