PluginsRScriptTasks

Commands​Commands

yaml
type: "io.kestra.plugin.scripts.r.Commands"

Execute R scripts from the Command Line Interface.

Examples

Create an R script, install required packages and execute it. Note that instead of defining the script inline, you could create the script as a dedicated R script in the embedded VS Code editor and point to its location by path. If you do so, make sure to enable namespace files by setting the enabled flag of the namespaceFiles property to true.

yaml
id: r_commands
namespace: company.team

tasks:
  - id: r
    type: io.kestra.plugin.scripts.r.Commands
    inputFiles:
      main.R: |
        library(lubridate)
        ymd("20100604");
        mdy("06-04-2011");
        dmy("04/06/2012")
    beforeCommands:
      - Rscript -e 'install.packages("lubridate")'
    commands:
      - Rscript main.R

Properties

commands

  • Type: array
  • SubType: string
  • Dynamic: ✔️
  • Required: ✔️
  • Min items: 1

The commands to run

interpreter

  • Type: array
  • SubType: string
  • Dynamic: ❌
  • Required: ✔️
  • Default: [ "/bin/sh", "-c" ]
  • Min items: 1

Which interpreter to use.

warningOnStdErr

  • Type: boolean
  • Dynamic: ❌
  • Required: ✔️
  • Default: true

Whether to set the task state to WARNING when any stdErr output is detected.

Note that a script error will set the state to FAILED regardless.

beforeCommands

  • Type: array
  • SubType: string
  • Dynamic: ✔️
  • Required: ❌

A list of commands that will run before the commands, allowing to set up the environment e.g. pip install -r requirements.txt.

containerImage

  • Type: string
  • Dynamic: ✔️
  • Required: ❌
  • Default: r-base

The task runner container image, only used if the task runner is container-based.

docker

Deprecated - use the 'taskRunner' property instead.

Only used if the taskRunner property is not set

env

  • Type: object
  • SubType: string
  • Dynamic: ✔️
  • Required: ❌

Additional environment variables for the current process.

failFast

  • Type: boolean
  • Dynamic: ❌
  • Required: ❌
  • Default: true

Fail the task on the first command with a non-zero status.

If set to false all commands will be executed one after the other. The final state of task execution is determined by the last command. Note that this property maybe be ignored if a non compatible interpreter is specified. You can also disable it if your interpreter does not support the set -eoption.

inputFiles

  • Type:
    • object
    • string
  • Dynamic: ✔️
  • Required: ❌

The files to create on the local filesystem. It can be a map or a JSON object.

namespaceFiles

Inject namespace files.

Inject namespace files to this task. When enabled, it will, by default, load all namespace files into the working directory. However, you can use the include or exclude properties to limit which namespace files will be injected.

outputDirectory

  • Type: boolean
  • Dynamic: ❌
  • Required: ❌
  • Default: false

Whether to setup the output directory mechanism.

Required to use the expression. Note that it could increase the starting time. Deprecated, use the outputFiles property instead.

outputFiles

  • Type: array
  • SubType: string
  • Dynamic: ✔️
  • Required: ❌

The files from the local filesystem to send to Kestra's internal storage.

Must be a list of glob) expressions relative to the current working directory, some examples: my-dir/, my-dir/*/ or my-dir/my-file.txt.

runner

  • Type: string
  • Dynamic: ❌
  • Required: ❌
  • Possible Values:
    • PROCESS
    • DOCKER

Deprecated - use the 'taskRunner' property instead.

Only used if the taskRunner property is not set

targetOS

  • Type: string
  • Dynamic: ❌
  • Required: ❌
  • Default: AUTO
  • Possible Values:
    • LINUX
    • WINDOWS
    • AUTO

The target operating system where the script will run.

taskRunner

  • Type: TaskRunner
  • Dynamic: ❌
  • Required: ❌
  • Default: { "type": "io.kestra.plugin.scripts.runner.docker.Docker" }

The task runner to use.

Task runners are provided by plugins, each have their own properties.

Outputs

exitCode

  • Type: integer
  • Required: ✔️
  • Default: 0

outputFiles

  • Type: object
  • SubType: string
  • Required: ❌

vars

  • Type: object
  • Required: ❌

Definitions

io.kestra.core.models.tasks.NamespaceFiles

  • enabled
    • Type: boolean
    • Dynamic: ❌
    • Required: ❌
    • Default: true
  • exclude
    • Type: array
    • SubType: string
    • Dynamic: ❌
    • Required: ❌
  • include
    • Type: array
    • SubType: string
    • Dynamic: ❌
    • Required: ❌

io.kestra.plugin.scripts.runner.docker.Cpu

  • cpus
    • Type: integer
    • Dynamic: ❌
    • Required: ❌

io.kestra.core.models.tasks.runners.TaskRunner

  • type
    • Type: string
    • Dynamic: ❌
    • Required: ✔️
    • Validation RegExp: \p{javaJavaIdentifierStart}\p{javaJavaIdentifierPart}*(\.\p{javaJavaIdentifierStart}\p{javaJavaIdentifierPart}*)*
    • Min length: 1

io.kestra.plugin.scripts.runner.docker.Memory

  • kernelMemory
    • Type: string
    • Dynamic: ✔️
    • Required: ❌
  • memory
    • Type: string
    • Dynamic: ✔️
    • Required: ❌
  • memoryReservation
    • Type: string
    • Dynamic: ✔️
    • Required: ❌
  • memorySwap
    • Type: string
    • Dynamic: ✔️
    • Required: ❌
  • memorySwappiness
    • Type: string
    • Dynamic: ✔️
    • Required: ❌
  • oomKillDisable
    • Type: boolean
    • Dynamic: ❌
    • Required: ❌

io.kestra.plugin.scripts.exec.scripts.models.DockerOptions

  • image
    • Type: string
    • Dynamic: ✔️
    • Required: ✔️
    • Min length: 1
  • config
    • Type:
      • string
      • object
    • Dynamic: ✔️
    • Required: ❌
  • cpu
    • Type: Cpu
    • Dynamic: ❌
    • Required: ❌
  • credentials
  • deviceRequests
  • entryPoint
    • Type: array
    • SubType: string
    • Dynamic: ✔️
    • Required: ❌
  • extraHosts
    • Type: array
    • SubType: string
    • Dynamic: ✔️
    • Required: ❌
  • host
    • Type: string
    • Dynamic: ✔️
    • Required: ❌
  • memory
    • Type: Memory
    • Dynamic: ❌
    • Required: ❌
  • networkMode
    • Type: string
    • Dynamic: ✔️
    • Required: ❌
  • pullPolicy
    • Type: string
    • Dynamic: ❌
    • Required: ❌
    • Default: ALWAYS
    • Possible Values:
      • IF_NOT_PRESENT
      • ALWAYS
      • NEVER
  • shmSize
    • Type: string
    • Dynamic: ✔️
    • Required: ❌
  • user
    • Type: string
    • Dynamic: ✔️
    • Required: ❌
  • volumes
    • Type: array
    • SubType: string
    • Dynamic: ✔️
    • Required: ❌

io.kestra.plugin.scripts.runner.docker.Credentials

  • auth
    • Type: string
    • Dynamic: ✔️
    • Required: ❌
  • identityToken
    • Type: string
    • Dynamic: ✔️
    • Required: ❌
  • password
    • Type: string
    • Dynamic: ✔️
    • Required: ❌
  • registry
    • Type: string
    • Dynamic: ✔️
    • Required: ❌
  • registryToken
    • Type: string
    • Dynamic: ✔️
    • Required: ❌
  • username
    • Type: string
    • Dynamic: ✔️
    • Required: ❌

io.kestra.plugin.scripts.runner.docker.DeviceRequest

  • capabilities
    • Type: array
    • SubType: array
    • Dynamic: ❌
    • Required: ❌
  • count
    • Type: integer
    • Dynamic: ❌
    • Required: ❌
  • deviceIds
    • Type: array
    • SubType: string
    • Dynamic: ✔️
    • Required: ❌
  • driver
    • Type: string
    • Dynamic: ✔️
    • Required: ❌
  • options
    • Type: object
    • SubType: string
    • Dynamic: ❌
    • Required: ❌