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Create a target that runs when the last run gets old

Source: R/tar_age.R
tar_age.Rd

tar_age() creates a target that reruns itself when it gets old enough. In other words, the target reruns periodically at regular intervals of time.

Usage

tar_age(
  name,
  command,
  age,
  pattern = NULL,
  tidy_eval = targets::tar_option_get("tidy_eval"),
  packages = targets::tar_option_get("packages"),
  library = targets::tar_option_get("library"),
  format = targets::tar_option_get("format"),
  repository = targets::tar_option_get("repository"),
  iteration = targets::tar_option_get("iteration"),
  error = targets::tar_option_get("error"),
  memory = targets::tar_option_get("memory"),
  garbage_collection = targets::tar_option_get("garbage_collection"),
  deployment = targets::tar_option_get("deployment"),
  priority = targets::tar_option_get("priority"),
  resources = targets::tar_option_get("resources"),
  storage = targets::tar_option_get("storage"),
  retrieval = targets::tar_option_get("retrieval"),
  cue = targets::tar_option_get("cue"),
  description = targets::tar_option_get("description")
)

Arguments

name

Name of the target. tar_cue_age() expects an unevaluated symbol for the name argument, whereas tar_cue_age_raw() expects a character string for name.

command

R code to run the target and return a value.

age

A difftime object of length 1, such as as.difftime(3, units = "days"). If the target's output data files are older than age (according to the most recent time stamp over all the target's output files) then the target will rerun. On the other hand, if at least one data file is younger than Sys.time() - age, then the ordinary invalidation rules apply, and the target may or not rerun. If you want to force the target to run every 3 days, for example, set age = as.difftime(3, units = "days").

pattern

Code to define a dynamic branching branching for a target. In tar_target(), pattern is an unevaluated expression, e.g. tar_target(pattern = map(data)). In tar_target_raw(), command is an evaluated expression, e.g. tar_target_raw(pattern = quote(map(data))).

To demonstrate dynamic branching patterns, suppose we have a pipeline with numeric vector targets x and y. Then, tar_target(z, x + y, pattern = map(x, y)) implicitly defines branches of z that each compute x[1] + y[1], x[2] + y[2], and so on. See the user manual for details.

tidy_eval

Logical, whether to enable tidy evaluation when interpreting command and pattern. If TRUE, you can use the "bang-bang" operator !! to programmatically insert the values of global objects.

packages

Character vector of packages to load right before the target runs or the output data is reloaded for downstream targets. Use tar_option_set() to set packages globally for all subsequent targets you define.

library

Character vector of library paths to try when loading packages.

format

Logical, whether to rerun the target if the user-specified storage format changed. The storage format is user-specified through tar_target() or tar_option_set().

repository

Logical, whether to rerun the target if the user-specified storage repository changed. The storage repository is user-specified through tar_target() or tar_option_set().

iteration

Logical, whether to rerun the target if the user-specified iteration method changed. The iteration method is user-specified through tar_target() or tar_option_set().

error

Character of length 1, what to do if the target stops and throws an error. Options:

  • "stop": the whole pipeline stops and throws an error.

  • "continue": the whole pipeline keeps going.

  • "null": The errored target continues and returns NULL. The data hash is deliberately wrong so the target is not up to date for the next run of the pipeline.

  • "abridge": any currently running targets keep running, but no new targets launch after that.

  • "trim": all currently running targets stay running. A queued target is allowed to start if:

    1. It is not downstream of the error, and

    2. It is not a sibling branch from the same tar_target() call (if the error happened in a dynamic branch).

    The idea is to avoid starting any new work that the immediate error impacts. error = "trim" is just like error = "abridge", but it allows potentially healthy regions of the dependency graph to begin running. (Visit https://books.ropensci.org/targets/debugging.html to learn how to debug targets using saved workspaces.)

memory

Character of length 1, memory strategy. If "persistent", the target stays in memory until the end of the pipeline (unless storage is "worker", in which case targets unloads the value from memory right after storing it in order to avoid sending copious data over a network). If "transient", the target gets unloaded after every new target completes. Either way, the target gets automatically loaded into memory whenever another target needs the value. For cloud-based dynamic files (e.g. format = "file" with repository = "aws"), this memory strategy applies to the temporary local copy of the file: "persistent" means it remains until the end of the pipeline and is then deleted, and "transient" means it gets deleted as soon as possible. The former conserves bandwidth, and the latter conserves local storage.

garbage_collection

Logical, whether to run base::gc() just before the target runs.

deployment

Character of length 1. If deployment is "main", then the target will run on the central controlling R process. Otherwise, if deployment is "worker" and you set up the pipeline with distributed/parallel computing, then the target runs on a parallel worker. For more on distributed/parallel computing in targets, please visit https://books.ropensci.org/targets/crew.html.

priority

Numeric of length 1 between 0 and 1. Controls which targets get deployed first when multiple competing targets are ready simultaneously. Targets with priorities closer to 1 get dispatched earlier (and polled earlier in tar_make_future()).

resources

Object returned by tar_resources() with optional settings for high-performance computing functionality, alternative data storage formats, and other optional capabilities of targets. See tar_resources() for details.

storage

Character of length 1, only relevant to tar_make_clustermq() and tar_make_future(). Must be one of the following values:

  • "main": the target's return value is sent back to the host machine and saved/uploaded locally.

  • "worker": the worker saves/uploads the value.

  • "none": almost never recommended. It is only for niche situations, e.g. the data needs to be loaded explicitly from another language. If you do use it, then the return value of the target is totally ignored when the target ends, but each downstream target still attempts to load the data file (except when retrieval = "none").

    If you select storage = "none", then the return value of the target's command is ignored, and the data is not saved automatically. As with dynamic files (format = "file") it is the responsibility of the user to write to the data store from inside the target.

    The distinguishing feature of storage = "none" (as opposed to format = "file") is that in the general case, downstream targets will automatically try to load the data from the data store as a dependency. As a corollary, storage = "none" is completely unnecessary if format is "file".

retrieval

Character of length 1, only relevant to tar_make_clustermq() and tar_make_future(). Must be one of the following values:

  • "main": the target's dependencies are loaded on the host machine and sent to the worker before the target runs.

  • "worker": the worker loads the targets dependencies.

  • "none": the dependencies are not loaded at all. This choice is almost never recommended. It is only for niche situations, e.g. the data needs to be loaded explicitly from another language.

cue

A targets::tar_cue() object. (See the "Cue objects" section for background.) This cue object should contain any optional secondary invalidation rules, anything except the mode argument. mode will be automatically determined by the age argument of tar_age().

description

Character of length 1, a custom free-form human-readable text description of the target. Descriptions appear as target labels in functions like tar_manifest() and tar_visnetwork(), and they let you select subsets of targets for the names argument of functions like tar_make(). For example, tar_manifest(names = tar_described_as(starts_with("survival model"))) lists all the targets whose descriptions start with the character string "survival model".

Value

A target object. See the "Target objects" section for background.

Details

tar_age() uses the cue from tar_cue_age(), which uses the time stamps from targets::tar_meta()$time. See the help file of targets::tar_timestamp() for an explanation of how this time stamp is calculated.

Dynamic branches at regular time intervals

Time stamps are not recorded for whole dynamic targets, so tar_age() is not a good fit for dynamic branching. To invalidate dynamic branches at regular intervals, it is recommended to use targets::tar_older() in combination with targets::tar_invalidate() right before calling tar_make(). For example, tar_invalidate(any_of(tar_older(Sys.time - as.difftime(1, units = "weeks")))) # nolint invalidates all targets more than a week old. Then, the next tar_make() will rerun those targets.

Target objects

Most tarchetypes functions are target factories, which means they return target objects or lists of target objects. Target objects represent skippable steps of the analysis pipeline as described at https://books.ropensci.org/targets/. Please read the walkthrough at https://books.ropensci.org/targets/walkthrough.html to understand the role of target objects in analysis pipelines.

For developers, https://wlandau.github.io/targetopia/contributing.html#target-factories explains target factories (functions like this one which generate targets) and the design specification at https://books.ropensci.org/targets-design/ details the structure and composition of target objects.

See also

Other cues: tar_cue_age(), tar_cue_force(), tar_cue_skip()

Examples

if (identical(Sys.getenv("TAR_LONG_EXAMPLES"), "true")) {
targets::tar_dir({ # tar_dir() runs code from a temporary directory.
targets::tar_script({
  library(tarchetypes)
  list(
    tarchetypes::tar_age(
      data,
      data.frame(x = seq_len(26)),
      age = as.difftime(0.5, units = "secs")
    )
  )
})
targets::tar_make()
Sys.sleep(0.6)
targets::tar_make()
})
}