Infernal

Infernal (Nawrocki & Eddy, 2013) is required to properly run tRNAscan-SE.

MacOS and Ubuntu installation

1. Open a Terminal window and start the Conda environment:

   > conda activate pdm_utils
   (pdm_utils)>
   

2. The most straightforward option is to use Conda to install Infernal:

   (pdm_utils)> conda install -c bioconda infernal -y
   

3. Test whether Infernal has been successfully installed:

   (pdm_utils)> cmsearch -h
   

If successful, a detailed description of the software’s options should be displayed.

If unsuccessful, an error message should be displayed, such as:

-bash: cmsearch: command not found