Running the lessons on your local machine

Training material

Download the training material copy & pasting the following command in the terminal:

$ git clone https://github.com/kerimoff/nf-training.git
$ cd nf-training

Training software

The simplest (and recommended) way to install the software for this course is using conda.

To install conda see here.

To create the training environment run:

conda env create -f environment.yml

Then activate the environment by running

conda activate nf-train

Data

Data is already in the ready format for usage.

Visual Studio Code editor setup

Any text editor can be used to write Nextflow scripts. A recommended code editor is Visual Studio Code.

Go to Visual Studio Code and you should see a download button. The button or buttons should be specific to your platform and the download package should be installable.

Nextflow language support in Visual Studio Code

You can add Nextflow language support in Visual Studio Code by clicking the install button on the Nextflow language extension.

In case you have problems in installing software with conda

Try your best to install all the software listed in environment.yml manually. If you still have no success then our training helpers can help you in the classroom.