The following was removed from a draft of the NASP scenario.

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Why conda?

There is any number of ways to install programs. We will use the conda package manager.

• it is cross platform
• it aims to be reproducible

The main highlights

What does the script do?

By default, conda will be installed under $HOME/miniconda3/. conda init add a snippet to

Community channels

There are two conda community 'channels' that work closely together:

• bioconda focuses on bioinformatic software
• conda-forge focuses on everything else including non-biospecific dependencies

conda search -c conda-forge -c bioconda{{execute}}

https://github.com/bioconda/bioconda-recipes

TODO: create a scenario specifically for conda that will teach users how to:

• install/update conda
• manage environments
• install/update/remove packages
• feeze/export/share environments for reproducibility
• create/build/install unpublished packages
• publish packages to bioconda/conda-forge

TODO: reduce this step to simply installing miniconda and refer users to the above conda scenario to learn more.

Conda solver slowdown FAQ and recommendations bioconda#13774