installation.rst

Installation

We recommend creating a new conda environment for sequencing. sequencing is compatible with, and tested on, Python 3.7, 3.8, and 3.9.

conda create -n <env-name> python=<3.7, 3.8, or 3.9>
conda activate <env-name>

Important

Note for Windows users:

QuTip: Installation on MS Windows: The only supported installation configuration is using the Conda environment with Python 3.5+ and Visual Studio 2015.

Installing with pip

pip install sequencing

Installing from source

Alternatively, you can install sequencing from GitHub using the following commands:

git clone https://github.com/sequencing-dev/sequencing.git
pip install -e .

Verifying the installation

To verify your installation by running the sequencing test suite, execute the following commands in a Python session:

>>> import sequencing.testing as st
>>> st.run()

If you prefer, you can also run the sequencing tests in a single line:

python -m sequencing.testing