= kscript - Having fun with Kotlin scripting

image:https://img.shields.io/github/release/kscripting/kscript.svg[GitHub release,link=https://github.com/kscripting/kscript/releases] image:https://github.com/kscripting/kscript/actions/workflows/build.yml/badge.svg[Build Status,link=https://github.com/kscripting/kscript/actions/workflows/build.yml] image:https://badges.gitter.im/kscripting/kscript.svg[Gitter,link=https://gitter.im/kscripting/kscript?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge]

Enhanced scripting support for https://kotlinlang.org/[Kotlin] on *nix-based and Windows systems.

Kotlin has some built-in support for scripting already, but it is not yet feature-rich enough to be a viable alternative in the shell.

In particular this wrapper around kotlinc adds

• Compiled script caching (using md5 checksums)
• Dependency declarations using gradle-style resource locators and automatic dependency resolution
• More options to provide scripts including interpreter mode, reading from stdin, local files or URLs
• Embedded configuration for Kotlin runtime options
• Support library to ease the writing of Kotlin scriptlets
• Deploy scripts as stand-alone binaries

Taken all these features together, kscript provides an easy-to-use, very flexible, and almost zero-overhead solution to write self-contained mini-applications with Kotlin.

Good News: Kotlin https://kotlinlang.org/docs/reference/whatsnew14.html#scripting-and-repl[v1.4] finally ships with a much improved - and needed - scripting integration. See https://github.com/Kotlin/kotlin-script-examples/blob/master/jvm/main-kts/MainKts.md[here] for examples and documentation. Still, we think that kscript has various benefits compared this new platform-bundled improved toolstack, so we'll plan to support kscript until the kotlin platform will ship with an even more rich and versatile kotlin scripting interpreter.

https://holgerbrandl.github.io/kscript_kotlinconf_2017/kscript_kotlinconf.html[`kscript` presentation from KotlinConf2017!]

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== Installation

To use kscript just Kotlin is required. To https://kotlinlang.org/docs/tutorials/command-line.html[install Kotlin] we recommend http://sdkman.io/install[sdkman]:

[source,bash]

curl -s "https://get.sdkman.io" | bash # install sdkman source "$HOME/.sdkman/bin/sdkman-init.sh" # add sdkman to PATH

sdk install kotlin # install Kotlin

Once Kotlin is ready, you can install kscript with

[source,bash]

sdk install kscript

To test your installation simply run

[source,bash]

kscript --help

This will check and inform about updates. To update kscript simply install it again as described above.

=== Run with docker

We provide an executable docker container to run kscript

[source,bash]

using the latest version of kscript

docker run -i kscripting/kscript 'println("Hello, world!")'

or using versioned container

docker run -i kscripting/kscript:4.2.0 'println("Hello, world!")'

To use a script file outside the container as input, you could do

[source,bash]

docker run -i kscripting/kscript - < script.kts

This will make kscript read the code from stdin while piping the file. Beware that the -i flag is needed to have stdout redirected outside the container.

Please note, that currently @Import are not supported when using a dockerized kscript. Also, any resource outside the container context may not be resolved correctly. To overcome this limitation, you could use for instance https://docs.docker.com/storage/bind-mounts/[bind mounts].

=== Installation without sdkman

If you have Kotlin already, and you would like to install the latest kscript release without using sdkman you can do so by unzipping the https://github.com/kscripting/kscript/releases/latest[latest ] binary release. Don't forget to update your $PATH accordingly.

=== Installation with Homebrew

On MacOS you can install kscript also with https://brew.sh/[Homebrew]

[source,bash]

brew install kscripting/tap/kscript

To upgrade to latest version

[source,bash]

brew update brew upgrade kscripting/tap/kscript

=== Installation on Arch Linux

On Arch Linux, kscript is available through the https://aur.archlinux.org/packages/kscript/[Arch Linux User repository (AUR)]. Use your favorite https://wiki.archlinux.org/index.php/AUR_helpers[AUR helper] to install, e.g. yay:

[source,bash]

yay -S kscript

There is an uncommon directory layout of Kotlin package for Arch Linux, which causes problems when using kscript with default Kotlin package. Two workarounds for ArchLinux exists, which can be used to make 'kscript' working with ArchLinux:

. Manually create symlinks in the system… + [source,bash]

sudo mkdir /usr/share/kotlin/bin sudo ln -s /usr/bin/kotlin /usr/share/kotlin/bin/kotlin
sudo ln -s /usr/bin/kotlinc /usr/share/kotlin/bin/kotlinc

. …or install Kotlin using SdkMan: + <<Installation,Installation using SdkMan>>

The problem should be fixed in the Kotlin package for ArchLinux. See more in the Github issue: + https://github.com/kscripting/kscript/issues/371

=== Installation on Windows

On Windows, kscript is available through the https://github.com/ScoopInstaller/Extras/blob/master/bucket/kscript.json[Scoop Extras bucket]. Use the following commands to install:

[source,powershell]

scoop bucket add extras scoop install kscript

To install scoop use the https://github.com/ScoopInstaller/Install[official guide].

=== Build it yourself

To build kscript yourself, simply clone the repo and do

[source,bash]

./gradlew assemble

Run kscript from output dir

./build/kscript/bin/kscript

== Script Input Modes

The main mode of operation is kscript <script>.

The <script> can be a Kotlin *.kts script file , a script URL, - for stdin, a process substitution file handle, a *.kt source file with a main method, or some kotlin code.

=== Interpreter Usage

To use kscript as interpreter for a script just point to it in the shebang line of your Kotlin scripts:

[source,kotlin]

#!/usr/bin/env kscript

println("Hello from Kotlin!") for (arg in args) { println("arg: $arg") }

=== Inlined Usage

To use kscript in a workflow without creating an additional script file, you can also use one of its supported modes for inlined usage. The following modes are supported:

• Directly provide a Kotlin scriptlet as argument

[source,bash]

kscript 'println("hello world")'

• Pipe a Kotlin snippet into kscript and instruct it to read from stdin by using - as script argument

[source,bash]

echo 'println("Hello Kotlin.")' | kscript -

• Using heredoc (preferred solution for inlining) which gives you some more flexibility to also use single quotes in your script:

[source,bash]

kscript - <<"EOF" println("It's a beautiful day!") EOF

• Since the piped content is considered as a regular script it can also have dependencies

[source,bash]

kscript - <<"EOF" @file:DependsOn("com.offbytwo:docopt:0.6.0.20150202", "log4j:log4j:1.2.14")

import org.docopt.Docopt val docopt = Docopt("Usage: jl [options] [<joblist_file>]")

println("hello again") EOF

• Finally, (for sake of completeness), it also works with process substitution and for sure you can always provide additional arguments (exposed as args : Array<String> within the script)

[source,bash]

kscript <(echo 'println("k-onliner")') arg1 arg2 arg3

Inlined kscripts are also cached based on md5 checksum, so running the same snippet again will use a cached jar ( sitting in ~/.kscript).

=== URL usage

To support remote scriplet repositories, kscript can also work with URLs. Consider the following https://github.com/kscripting/kscript/blob/master/examples/url_example.kts[hello-world-gist-scriptlet] which is hosted on github (but any URL would work). To run it locally as a tool simply refer to it (here using the shortened https://raw.githubusercontent.com/kscripting/kscript/master/examples/url_example.kts[raw-URL] of the script for better readability)

[source,bash]

kscript https://git.io/v1cG6 my argu ments

To streamline the usage, the first part could be even aliased:

[source,bash]

alias hello_kscript="kscript https://git.io/v1cG6" hello_kscript my argu ments

Via this mechanism, kscript allows for easy integration of remotely hosted (mini) programs into data workflows.

URL-scripts are cached locally to speed up processing, and kscript --clear-cache can be used to wipe the cache if needed.

See this http://holgerbrandl.github.io/kotlin/2016/12/02/mini_programs_with_kotlin.html[blogpost] for a more extensive overview about URL support in kscript.

== Script Configuration

The following directives supported by kscript to configure scripts:

• @file:DependsOn to declare dependencies with gradle-style locators
• @file:Import to source kotlin files into the script
• @file:EntryPoint to declare the application entrypoint for kotlin *.kt applications
• @file:CompilerOptions to configure the compilation options
• @file:KotlinOptions to configure the kotlin/java runtime environment

=== Declare dependencies with @file:DependsOn

To specify dependencies simply use gradle-style locators. Here's an example using https://github.com/docopt/docopt.java[docopt] and http://logging.apache.org/log4j/2.x/[log4j]

[source,kotlin]

#!/usr/bin/env kscript @file:DependsOn("com.offbytwo:docopt:0.6.0.20150202", "log4j:log4j:1.2.14")

import org.docopt.Docopt import java.util.*

val usage = """ Use this cool tool to do cool stuff Usage: cooltool.kts [options] <fastq_files>...

Options: --gtf Custom gtf file instead of igenome bundled copy --pc-only Use protein coding genes only for mapping and quantification """

val doArgs = Docopt(usage).parse(args.toList())

println("Hello from Kotlin!") println("Parsed script arguments are: \n$doArgs")

kscript will read dependencies from all lines in a script that start with @file:DependsOn (if any). Multiple dependencies can be split by comma, space or semicolon.

=== Configure the runtime with @file:KotlinOptions

kscript allows to provide a @file:KotlinOptions directive followed by parameters passed on to kotlin similar to how dependencies are defined:

[source,kotlin]

#!/usr/bin/env kscript @file:KotlinOptions("-J-Xmx5g", "-J-server")

println("Hello from Kotlin with 5g of heap memory running in server mode!")

Note: Similar to the runtime you can also tweak the compile step by providing @file:CompilerOptions.

=== Ease prototyping with @file:Import

kscript supports an @file:Import directive to directly include other source files without prior compilation. Absolute and relative paths, as well as URLs are supported. Example:

[source,kotlin]

//utils.kt fun Array.median(): Double { val (lower, upper) = sorted().let { take(size / 2) to takeLast(size / 2) } return if (size % 2 == 0) (lower.last() + upper.first()) / 2.0 else upper.first() }

Which can be now used using the @file:Import directive with

[source,kotlin]

#!/usr/bin/env kscript

@file:Import("utils.kt")

val robustMean = listOf(1.3, 42.3, 7.0).median() println(robustMean)

The argument can be an URL, absolute or relative file path. Note that URLs used in include directives are cached locally to speed up processing, that is kscript won't fetch URLs again unless the user actively clears the cache with kscript --clear-cache.

For more examples see link:test/resources/includes/include_variations.kts[here].

=== Use @file:EntryPoint to run applications with main method

kscript also supports running regular Kotlin kt files.

Example: ./examples/Foo.kt:

[source,kotlin]

package examples

@file:EntryPoint("examples.Bar")

class Bar { companion object { @JvmStatic fun main(args: Array) { println("Foo was called") } } }

fun main(args: Array) = println("main was called")

To run top-level main instead we would use @file:EntryPoint("examples.FooKt")

The latter is the default for kt files and could be omitted

=== Examples of annotation driven configuration

[source,kotlin]

#!/usr/bin/env kscript

// Declare dependencies @file:DependsOn("com.github.holgerbrandl:kutils:0.12") @file:DependsOn("com.beust:klaxon:0.24", "com.github.kittinunf.fuel:fuel:2.3.1")

// To use a custom maven repository you can declare it with @file:Repository("http://maven.imagej.net/content/repositories/releases")

// For compatibility with https://github.com/ligee/kotlin-jupyter kscript supports also @file:DependsOnMaven("net.clearvolume:cleargl:2.0.1") // Note that for compatibility reasons, only one locator argument is allowed for @DependsOnMaven

// also protected artifact repositories are supported, see https://github.com/kscripting/kscript/blob/master/test/TestsReadme.md#manual-testing // @file:Repository("my-art", "http://localhost:8081/artifactory/authenticated_repo", user="auth_user", password="password") // You can use environment variables for user and password when string surrounded by double {} brackets // @file:Repository("my-art", "http://localhost:8081/artifactory/authenticated_repo", user="{{ARTIFACTORY_USER}}", password="{{ARTIFACTORY_PASSWORD}}") // will be use 'ARTIFACTORY_USER' and 'ARTIFACTORY_PASSWORD' environment variables // if the value doesn't found in the script environment will fail

// Include helper scripts without deployment or prior compilation @file:Import("util.kt")

// Define kotlin options @file:KotlinOptions("-J-Xmx5g") @file:KotlinOptions("-J-server") @file:CompilerOptions("-jvm-target 1.8")

// declare application entry point (applies on for kt-files) @file:EntryPoint("Foo.bar")

print("1+1")

To enable the use of these annotations in Intellij, the user must add the following artifact to the project dependencies:

io.github.kscripting:kscript-annotations:1.5

kscript will automatically detect an annotation-driven script, and if so will declare a dependency on this artifact internally.

Note, that if a script is located in a package other than the root package, you need to import the annotations with ( e.g. import DependsOn).

== Text Processing Mode

kscript can be used as a speedier and more flexible substitute for built-in terminal text tools such as awk or sed . Its text processing mode can be enabled with -t or --text. If so, kscript will

• Declare com.github.kscripting:kscript-support-api:1.2.5 as dependency for the script. This https://github.com/kscripting/kscript-support-api[support library] eases the writing of Kotlin scriptlets for text-processing. It includes solutions to common use-cases like argument parsing, data streaming, IO utilities, and various iterators to streamline the writing of scriptlets for text processing.
• Import the kscript.* namespace
• Define variable val lines = kscript.text.resolveArgFile(args) which returns an iterator over the lines in the first input argument of the script, or the standard input if no file arguments are provided to the script

This allows to replace awkward constructs (or sed orperl) with kotlinesque solutions such as

[source,bash]

cat some_file | kscript -t 'lines .filter { "^de0[-0]*".toRegex().matches(it) } .map { it + "foo:" } .print() '

In this example, the extension method https://github.com/kscripting/kscript-support-api/blob/master/src/main/kotlin/kscript/text/StreamUtil.kt#L34[`Iterable.print()`] to print the lines to stdout comes from the support API. The rest is stdlib Kotlin.

For more examples using the support library see this http://holgerbrandl.github.io/kotlin/2017/05/08/kscript_as_awk_substitute.html[blog post].

== Treat yourself a REPL with --interactive

To create an interactive kotlin shell ( aka https://kotlinlang.org/docs/tutorials/command-line.html#running-the-repl[REPL]) with all script dependencies added to the classpath you can use --interactive.

For example, let's assume the following short script, named CountRecords.kts

[source,kotlin]

#!/usr/bin/env kscript @file:DependsOn("com.github.holgerbrandl:kutils:0.12")

import de.mpicbg.scicomp.bioinfo.openFasta

if (args.size != 1) { System.err.println("Usage: CountRecords ") kotlin.system.exitProcess(-1) }

val records = openFasta(java.io.File(args[0])) println(records.count())

To build a REPL that has the declared artifact in its classpath, we can just do

[source,bash]

kscript --interactive CountRecords.kts

which will bring up the classpath-enhanced REPL:

Creating REPL from CountRecords.kts Welcome to Kotlin version 1.1.51 (JRE 1.8.0_151-b12)

import de.mpicbg.scicomp.bioinfo.openFasta

== Boostrap IDEA from a scriptlet

Artifacts and versions will differ between scripts, so it is hard to maintain them all in a single project. To nevertheless provide optimal tooling when scripting with Kotlin kscript allows to create temporary projects for <script> arguments.

[source,bash]

kscript --idea CountRecords.kts

If you have available gradle in the path project will be automatically built and if there is idea in the path the project will be opened in https://www.jetbrains.com/idea/[IntelliJ IDEA] with a minimalistic project containing just your (1) <script> and (2) a generated build.gradle.kts file:

image:misc/readme_images/minus_idea.png[]

The idea command line launcher can can be created in IntelliJ with Create Command-line Launcher command, or you can set the command used to launch your IntelliJ as KSCRIPT_COMMAND_IDEA env property. Similarly, you can set gradle command using KSCRIPT_COMMAND_GRADLE env property.

== Deploy scripts as standalone binaries

To deploy a script simply do

[source,bash]

kscript --package some_script.kts ./some_script --arg u ments

The created binary will contain a compiled copy of the script, as well as all declared dependencies (fatjar). Also runtime jvm parameters declared via @file:KotlinOptions are used to spin up the JVM.

Just java is required to run these binaries.

== Embed kscript installer within your script

To make a script automatically <<Installation,install kscript>> and its dependencies on first run if necessary, run:

[source,bash]

kscript --add-bootstrap-header some_script.kts

Now some_script.kts can be shared and run directly on any other machine that has bash, without having to go through the <> steps first.

Note that unlike the <<Deploy scripts as standalone binaries,--package option>> this doesn't produce a separate file, allowing the distributed script to be read and modified(including with <<Boostrap IDEA from a scriptlet,kscript --idea>>) similar to what you might expect with bash/python/ruby scripts. On the other hand this doesn't embed dependencies within the script("fat jar"), so internet connection may be required on its first run.

== kscript configuration file

To keep some options stored permanently in configuration you can create kscript configuration file.

KScript follows XDG directory standard, so the file should be created in (paths are resolved in provided order; first existing path is used):

|=== |OS |PATH

|Windows | %LOCALAPPDATA%\kscript\kscript.properties; %USERPROFILE%.config\kscript\kscript.properties |MacOs | ~/Library/Application Support/kscript/kscript.properties; |Posix | ${XDG_CONFIG_DIR}/kscript/kscript.properties; ${user.home}/.config/kscript/kscript.properties |===

If the environment variable: KSCRIPT_DIRECTORY is defined the configuration file 'kscript.properties' will be placed directly inside it.

Content of kscript.properties file is a standard Java format, with following properties available:

scripting.preamble= scripting.kotlin.opts= scripting.repository.url= scripting.repository.user= scripting.repository.password= scripting.directory.artifacts=

Example configuration file:

scripting.preamble=// declare dependencies\n
@file:DependsOn("com.github.holgerbrandl:kutils:0.12")\n
\n
// make sure to also support includes in here\n
// @file:Import("util.kt")\n
@file:Import("https://raw.githubusercontent.com/kscripting/kscript/master/test/resources/custom_dsl/test_dsl_include.kt")\n\ \n
\n
// define some important variables to be used throughout the dsl\n
val foo = "bar"

scripting.kotlin.opts=-J-Xmx4g scripting.repository.url=https://repository.example scripting.repository.user=user scripting.repository.password=password

== FAQ

=== How to edit kscript in VS Code?

See https://magnusgunnarsson.se/offentlig/kscript-in-visual-studio-code-vsc/ for a walkthrough and the required editor configuration.

=== Why is kscript not calling the main method in my .kts script?

There is https://kotlinlang.org/docs/tutorials/command-line.html#using-the-command-line-to-run-scripts[no need] for a main method in a Kotlin script. Kotlin *.kts scripts can be more simplistic compared to more common kotlin *.kt source files. The former work without a main method by directly running the provided code from top to bottom. E.g.

print("hello kotlin!")

is a valid Kotlin kts script. Plain and simple, no main, no companion, just a few bits of code.

=== Does kscript also work for regular kotlin .kt source files with a main as entry point?

Yes, (since kscript v1.6) you can run kotlin source files through kscript. By default, it will assume a top-level main method as entry-point.

However, in case you're using a companion object to declare the entry point, you need to indicate this via the @file:Entry.

=== What are performance and resource usage difference between scripting with kotlin and python?

Kotlin is a compiled language, so there is a compilation overhead when you run a script/application written in Kotlin for the first time.

Kotlin runs (mainly) on the JVM which needs some time (~200ms) to start up. In contrast, the python interpreter has close to zero warmup time.

I think there is a consensus that JVM programs execute much faster than python equivalents. Still, python might be faster depending on your specific usecase. Also, with kotlin-native becoming more mature, you could compile into native binaries directly, which should bring it close to C/C++ performance.

Main motivations for using Kotlin over Python for scripting and development are

• Kotlin is the better designed, more fluent language with much better tooling around it
• The JVM dependency ecosystem allows for strict versioning. No more messing around with virtualenv, e.g. to run a short 10liner against a specific version of numpy.

=== Does kscript work with java?

The only language supported by kscript is kotlin. For a similar approach centering around Java scripting see https://github.com/maxandersen/jbang[jbang].

=== Can I use custom artifact repositories?

Yes, via the @Repository annotation. See <<Script Configuration,annotations section>> or link:test/resources/custom_mvn_repo_annot.kts[custom_mvn_repo_annot] for a complete example

== Support

Feel welcome to post ideas and suggestions to our https://github.com/kscripting/kscript/issues[tracker].

More advanced use-cases are documented in the link:docs/user_guide.md[complementary user guide]

== How to contribute?

We always welcome pull requests and trouble tickets. :-)

Help to spread the word. Great community articles about kscript include

• https://medium.com/@OhadShai/type-safety-in-the-shell-with-kscript-7dd40d022537[Type-safety in the shell with kscript]
• https://medium.com/@kenkyee/using-kotlin-kscript-for-preprocessing-data-1dbff4eae292[Using Kotlin kscript for Preprocessing Data]
• https://holgerbrandl.github.io/kotlin/2017/05/08/kscript_as_awk_substitute.html[kscript as substitute for awk]
• https://hackernoon.com/a-complete-backend-only-with-kotlin-and-your-favourite-text-editor-582b4528688[A complete backend with Kotlin and your favourite text-editor] -using kscript

You could also show your support by upvoting kscript here on github, or by voting for issues in Intellij IDEA which impact kscripting. Here are our top 2 tickets/annoyances that we would love to see fixed:

• https://youtrack.jetbrains.com/issue/KT-13347[KT-13347] Good code is red in injected kotlin language snippets

To allow for more interactive script development, you could also vote/comment on the most annoying REPL issues.

• https://youtrack.jetbrains.net/issue/KT-24789[KT-24789] "Unresolved reference" when running a script which is a symlink to a script outside of source roots
• https://youtrack.jetbrains.com/issue/KT-12583[KT-12583] IDE REPL should run in project root directory
• https://youtrack.jetbrains.com/issue/KT-11409[KT-11409] Allow to "Send Selection To Kotlin Console"

== Acknowledgements

The initial version of kscript was kindly contributed by https://github.com/oskargb[Oscar Gonzalez].

Special thanks to https://github.com/ilanpillemer[Ilan Pillemer], https://github.com/gildor[Andrey Mischenko ] , https://github.com/stephenbyrne-mfj[Stephen Byrne], https://github.com/EugeneSusla[Eugene Susla] , https://github.com/elihart[Eli Hart], https://github.com/hj-lee[Hwijae Lee] and https://github.com/oshai[oshai] for https://github.com/kscripting/kscript/graphs/contributors[contributing] PRs to this repo.

Thanks also to the https://www.scionics.com/[Scionics Computer Innovation GmbH] and the http://www.mpi-cbg.de[MPI-CBG] for supporting this project.

Version 3.1 to 4.0 rewrite and current maintenance by https://github.com/aartiPl/[Marcin Kuszczak]

kscript was inspired by https://github.com/andrewoma/kotlin-script[kotlin-script] which is another great way (now deprecated) to do scripting in Kotlin.