Pymc3: Update notebooks and examples

[junpenglao]

As discussed in the lab meeting today, we should update all notebooks and examples to the most recent recommended practice, including:

• remove find_MAP as initiating the sampling
• multiple chains
• update kwarg (especially after #2831)
• unify notebook format, eg:
  
  
  
  • moving original author information to the bottom of the notebook
  
  
  • color style (maybe plt.style.use('seaborn-darkgrid')?)
  
  
  • move import below title (some are above)
  
  
• simplify http://docs.pymc.io/notebooks/getting_started.html (maybe a bit too formal as the content is mostly taken from the pymc3 paper)
• some notebook is not indexed on the website: eg updating_priors.ipynb

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Checklist for updating notebook:

• move original author information to the bottom of the notebook
• remove find_MAP as initiating the sampling, use multiple chains and default sampling as much as possible
• update kwarg when possible
• move import below the title and use below format for the first cell

%matplotlib inline
import pymc3 as pm
import numpy as np
import matplotlib.pyplot as plt

plt.style.use('seaborn-darkgrid')
print('Running on PyMC3 v{}'.format(pm.__version__))

[aloctavodia]

thumbs up to plt.style.use(['seaborn-darkgrid'])

[junpenglao]

I think it fits well with our PyMC3 blue scheme

[aloctavodia]

just nitpicking, we can directly use plt.style.use('seaborn-darkgrid')

[junpenglao]

For ppl participating Docathon today, please follow the checklist below:

• move original author information to the bottom of the notebook
• move import below the title
• use plt.style.use('seaborn-darkgrid')
• remove find_MAP as initiating the sampling, use multiple chains and default sampling as much as possible
• update kwarg when possible

[junpenglao]

Template import (suggestion/edit welcome):

%pylab inline

import numpy as np
import pymc3 as pm
import theano.tensor as tt

plt.style.use('seaborn-darkgrid')
print('Running on PyMC3 v%s'%pm.__version__)

[aloctavodia]

I would prefer

%matplotlib inline
import pymc3 as pm
import numpy as np
import matplotlib.pyplot as plt

plt.style.use('seaborn-darkgrid')
print('Running on PyMC3 v{}'.format(pm.__version__))

[junpenglao]

I prefer print() which doesnt leave a '' mark :-p

[aloctavodia]

I updated my previous comment with the print() function.

[junpenglao]

Close as it is outdated.