rodluger

Working with a public repo and a private repo

We currently have a public vplanet repo and a private vplanet-private repo. Here's what we decided our workflow should look like:

All development is done on the (non-master) branches of vplanet-private and synced to master via pull requests. When a change is ready to be incorporated into the current released version of the code, we go to our local clone of the public vplanet repository and pull from master on vplanet-private to local dev. Then, on the GitHub UI, we issue a pull request for master on vplanet.

Setting up tracking on your local machine

rodluger

Migration to GitHub

Create the empty repo vplanet-dev on GitHub. Then, on your local machine, cd into the vplanet directory and run

git remote rename origin bitbucket
git remote add origin https://github.com/VirtualPlanetaryLaboratory/vplanet-dev.git
git push origin master
git remote rm bitbucket

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Cleaning the vplanet repo

Most of what we need to know is here. First we download BFG and create the alias

alias bfg='java -jar bfg-1.13.0.jar'

Note that we need the latest version of the Java Runtime Environment installed.

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import starry
import matplotlib.pyplot as plt
import numpy as np
from tqdm import tqdm

# Settings
starry.config.lazy = False
np.random.seed(12)

# Load a map of the earth

rodluger

"""
A very simple / slow / inefficient / unstable implementation of a Gaussian
process for stellar light curves. We sample lots of surface maps from a 
given distribution of spot sizes / locations / contrasts and compute the
empirical mean and covariance of the resulting distribution. In the limit
that our number of samples is infinite, this yields the meand and covariance
of the desired GP!
"""
import starry
import numpy as np

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# Hack to allow importing `pymc3` without an internet connection
# This was fixed in https://github.com/dask/distributed/pull/3991
try:
    import distributed
except Exception as e:
    try:
        import socket

        getaddrinfo = socket.getaddrinfo
        socket.getaddrinfo = lambda *args: [