Installation

Using Conda

Install Conda:

wget https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh
bash Miniconda3-latest-Linux-x86_64.sh

As per the Bioconda guidelines, add the following conda channels:

conda config --add channels defaults
conda config --add channels bioconda
conda config --add channels conda-forge
conda config --set channel_priority strict

Then install SortMeRNA:

conda search sortmerna
  Loading channels: done
  # Name                       Version           Build  Channel
  sortmerna                        2.0               0  bioconda
  ...
  sortmerna                      4.3.4               0  bioconda
  ...
  sortmerna                      4.3.6               0  bioconda

# create a new environment and install SortMeRNA in it
conda create --name sortmerna_env
conda activate sortmerna_env
conda install sortmerna
which sortmerna
  /home/biocodz/miniconda3/envs/sortmerna_env/bin/sortmerna

# test the installation
sortmerna --version
  SortMeRNA version 4.3.6
  Build Date: Aug 16 2022
  sortmerna_build_git_sha:@db8c1983765f61986b46ee686734749eda235dcc@
  sortmerna_build_git_date:@2022/08/16 11:42:59@

# view help
sortmerna -h