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fix environment file
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lmoncla committed Nov 26, 2019
1 parent d2c9c5c commit 115d1411483e0035ffebd46573fac6d9194a5a76
Showing with 125 additions and 263 deletions.
  1. +1 −0 README.md
  2. +124 −263 h5n1-cambodia-environment.yml
@@ -13,6 +13,7 @@ Avian influenza viruses (AIVs) periodically cross species barriers and infect hu
The notebooks in this repo require `baltic/baltic.py`, which is available from [this GitHub repo](https://github.com/evogytis/baltic). There is a working version in this repo. Every notebook also requires R and ryp2, a package for using R within python jupyter notebooks. To ensure you have all the required packages, do the following:

1. Install [miniconda](https://docs.conda.io/en/latest/miniconda.html) for your machine.
2. Install [R](https://www.r-project.org/) if you do not have it.
2. Clone this repo: `git clone https://github.com/blab/h5n1-cambodia`
3. Create the conda environment: `conda env create -f h5n1-cambodia-environment.yml`
4. Activate the environment: `conda activate h5n1-cambodia-environment`

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