Perl minimal version 5.16 ( recommanded 5.20+ )
Integrated Bioinformatics tools
The following methods are for installing TOGGLe only. The softwares for analyses theselves (e.g. bwa or samtools) must be installed separately.
There are 2 ways to install TOGGLe on a GNU/Linux System in 64bits
In the following method, the ‘/path/to/toggle’ represents the absolute path of the installation folder of TOGGLe. You can obtain it by launching a pwd command in this folder.
- Clone the git repository
- Modify the file /path/to/toggle/modules/localConfig.pm
This file will provide to TOGGLe the paths for all the softwares you will use in your workflows. You can open it using any text editor (e.g. Gedit, nano, mousepad or Leafpad).
Some example of localConfig (based on v0.3.6) are available here for a standard installation.
If a given tool is not installed, you can leave the line as such. TOGGLe will work only with the tools you request in your workflows.
- Add the TOGGLe modules path to the PERL5LIB environment variable
- In the same way add the TOGGLe directory to the PATH environment variable
Note: you can add this to your ~/.bashrc to make it always available when you log in, as follows:
This script is dedicated for an installation in the user space (no admin rights required).
Just download it, launch it and follow the instructions.
Then you can launch the different scripts in the TOGGLe folder