You will need access to these commands on the command line:
conda(Anaconda or Miniconda with Python 3)git(conda install gitor git-scm.com)
Download this source code, either manually through GitHub or using git:
git clone https://github.com/jpgill86/analysis.git
On the command line, navigate to the top-level directory:
cd analysis
Create a new conda environment:
conda env create -f environment.yml -n analysis
or update an existing one:
conda env update -f environment.yml -n analysis
Instead of analysis, you could use any environment name you like, but the
scripts in the scripts directory assume this is your environment name.
Activate your conda environment and launch Jupyter notebook:
conda activate analysis jupyter notebook
Using the Jupyter file browser, navigate to the notebooks directory and
select a Jupyter notebook file (*.ipynb) to begin a session.
The launch-notebooks script located under scripts can run these
commands and navigate to the correct directory for you.
When creating a new conda environment, you may use one of the files in the
snapshots directory instead of environment.yml to create an exact
replica of an environment created using that file on a particular date (these
files were created using conda env export, with git commands pointing to
specific commits added manually). This is useful for tracking down bugs or
reproducing old results exactly when external package updates create unexpected
changes in output. Using old environment snapshots may result in installing old
versions of packages when newer versions would work just as well, so try
environment.yml first.