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Installation

nf-test has the same requirements as Nextflow and can be used on POSIX compatible systems like Linux or OS X. You can install nf-test using the following command:

curl -fsSL https://code.askimed.com/install/nf-test | bash

If you don't have curl installed, you could use wget:

wget -qO- https://code.askimed.com/install/nf-test | bash

It will create the nf-test executable file in the current directory. Optionally, move the nf-test file to a directory accessible by your $PATH variable.

Verify installation

Test the installation with the following command:

nf-test version

You should see something like this:

🚀 nf-test 0.5.0
https://code.askimed.com/nf-test
(c) 2021 -2022 Lukas Forer and Sebastian Schoenherr

Nextflow Runtime:

      N E X T F L O W
      version 21.10.6 build 5660
      created 21-12-2021 16:55 UTC (17:55 CEST)
      cite doi:10.1038/nbt.3820
      http://nextflow.io

Now you are ready to write your first testcase.

Install a specific version

If you want to install a specific version pass it to the install script as so

curl -fsSL https://code.askimed.com/install/nf-test | bash -s 0.7.0

Manual installation

All releases are also available on Github.

Nextflow Binary not found?

If you get an error message like this, then nf-test was not able to detect your Nextflow installation.

🚀 nf-test 0.5.0
https://code.askimed.com/nf-test
(c) 2021 -2022 Lukas Forer and Sebastian Schoenherr

Nextflow Runtime:
Error: Nextflow Binary not found. Please check if Nextflow is in a directory accessible by your $PATH variable or set $NEXTFLOW_HOME.

To solve this issue you have two possibilites:

  • Move your Nextflow binary to a directory accessible by your $PATH variable.
  • Set the environment variable NEXTFLOW_HOME to the directory that contains the Nextflow binary.

Updating

To update an existing nf-test installtion to the latest version, run the following command:

nf-test update

Compiling from source

To compile nf-test from source you shall have maven installed. This will produce a nf-test/target/nf-test.jar file.

git clone git@github.com:askimed/nf-test.git
cd nf-test
mvn install
To use the newly compiled nf-test.jar, update the nf-test bash script that is on your PATH to point to the new .jar file. First locate it with which nf-test, and then modify APP_HOME and APP_JAR vars at the top: 
#!/bin/bash
APP_HOME="/PATH/TO/nf-test/target/"
APP_JAR="nf-test.jar"
APP_UPDATE_URL="https://code.askimed.com/install/nf-test"
...