Install

Install

Via conda

This guide uses miniconda3 as the environment manager; please reference their install and initialization instructions. Mycotools is also available in PyPi via pip, though external dependencies then need to be installed manually.

Configure the channels:

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

Create and activate the environment:

conda create -n mycotools mycotools
conda activate mycotools
mtdb -v

Via container

This installation uses Singularity as the container manager. Docker also works, though Singularity is recommended for its simplified integration with file systems and its compatibility with HPCs. Fetch the latest pull tag for Mycotools here, then pull and initialize the container:

singularity pull mycotools.sif docker://quay.io/biocontainers/mycotools:<TAG>
./mycotools.sif

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Update

Mycotools is in an advanced beta state with frequent updates. If you are having trouble with analyses, update within your conda environment:

conda update mycotools