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Installing

Step 1:

Install conda by visiting the Miniconda downloads page and following the prompts to install on your system.

Open the downloaded miniconda file and follow the installation prompts.

Step 2:

Open a terminal (Mac or Linux) or Anaconda PowerShell Prompt (Windows) and verify that conda has been installed with the following command.

conda --version

A response like conda xx.xx.xx indicates that it has been correctly installed.

Step 3:

Update conda and use the libmamba solver (makes downloading conda programs MUCH faster):

conda update -n base conda
conda install -n base conda-libmamba-solver
conda config --set solver libmamba

Step 4:

Install packages that help Jupyter notebooks read conda environments:

conda install -n base nb_conda nb_conda_kernels

Step 5:

Install the behavysis_pipeline conda environment (download here).

conda env create -f path/to/conda_env.yaml

Step 6:

Install the DEEPLABCUT conda environment (download here).

conda env create -f path/to/DEEPLABCUT.yaml

Step 7:

Install the simba conda environment (download here).

conda env create -f path/to/simba_env.yaml