Welcome to the Decona wiki!

Installation

Decona is sensitive to installation version of dependencies. To keep things simple the installer will create a virtual Conda environment for you containing everything you need. All dependencies are included with exception of the BLAST+ command line application. If the BLAST function is desired it can be downloaded from NCBI BLAST+.

What you need:

• Linux command line (I use Windows, what to do?)
• Miniconda ( How to install Miniconda )
• Download the .tar file from this depository, place it in you working directory

Run the following commands to unzip and install the file. A Conda environment will be generated containing all necessary dependencies.

$ tar xjvf decona-0.1.2.tar.bz2
$ ./decona/bin/install.sh
$ conda activate decona

Decona environment

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Whenever you want to use Decona start it’s environment first.

$ conda activate decona

When you’re done or want to leave the environment you can simply deactivate it.

$ conda deactivate

Removing Decona + environment

This will remove Decona with it’s environment and the dependencies within the environment.

$ conda remove -n decona --all

For Windows users

Yes, you can use Decona! From the Microsoft Store on your computer you can download a Linux command line app called “Ubuntu”. You install it like any other program in Windows, before opening it you first may have to allow subsystems for Windows! To do so find your settings to “Turn Windows features on or off”. Choose “Windows subsystem for Linux” apply and reboot your computer. You are now able to use Linux command line on your Windows PC or laptop. It is good to know that from the Linux environment you will be in you can reach your files on Windows at the following location /cmd/c/Users/yourusername/Downloads. (You may have downloaded the .tar file there!)