env.yml for binder

.gitignore

@@ -33,3 +33,11 @@ nosetests.xml
 .mr.developer.cfg
 .project
 .pydevproject
+
+# Jupiter Notebooks
+.ipynb_checkpoints/
+
+# generated plots
+*.eps
+*.pdf
+*.png

README.md

@@ -1,6 +1,60 @@
 ThinkBayes
 ==========
 
+Launch now and run interactively by clicking this badge,
+then navigate to the \notebooks directory and open the
+notebook corresponding to the chapter you want to read: 
+[![Binder](http://mybinder.org/badge.svg)](http://mybinder.org/repo/rlabbe/ThinkBayes)
+
+
+This material was adapted from Allen Downey's Think Bayes 
+Github repository by Roger Labbe. 
+
+Mostly I took his code and tex file and converted them into
+a series of Jupyter notebooks. This was sometimes problamatic.
+Allen uses a lot of Python classes, and his exposition splits
+the code across multiple paragraphs. It's a great pedagogical
+technique, but does not cleanly work in notebooks, where you have
+to specify the entire class in one cell. Furthermore, most of 
+his code is in .py files. 
+
+I made this work as best I could, but sometimes there were
+authorial decisions that I do not feel comfortable making. 
+The code just doesn't run in those spots. Sometimes I left
+the code in markdown cells rather than putting it in code
+cells, and then imported the class from the .py file. I kind
+of figured this out as I proceeded, so perhaps there are
+stylistic differences in the back vs the front of the book.
+
+He generates many graphs, but does not supply the source code.
+Maybe the code is in the /code subdirectory? In a few places 
+I took the liberty of supplying the Python, but in many places
+I did not. Maybe somebody else will feel like doing that; 
+I don't really have time right now. Pull requests accepted!
+
+There are several places in the text where it was not clear
+to me where he got his datasets. Rather than making something
+up, I just let the code cells fail to execute. I hope Allen
+will help me rectify these situations. If not, and there is
+enough interest, we can make some decisions and get the cells
+working.
+
+I put his code in a /code subdirectory. I did not fix the references
+in the book, which specify going to his home page to get the code.
+Again, I wanted to make as few editorial decisions as possible.
+
+I did alter most of the code to work with Python 3. Mainly by using
+
+    from __future__ import print_function
+
+but in a few places I had to fix things like removing `xrange` or
+`iterkeys()`. I only did just enough work to get it working.
+
+
+His original README is:
+
+https://github.com/AllenDowney/ThinkBayes
+
 Code repository for Think Bayes: Bayesian Statistics Made Simple
 by Allen B. Downey
 

code/538.json

@@ -0,0 +1,47 @@
+{
+  "lines.linewidth": 2.0,
+  "patch.linewidth": 0.5,
+  "legend.fancybox": true,
+  "axes.color_cycle": [
+    "#6d904f",
+    "#013afe", 
+    "#202020",
+    "#fc4f30",
+    "#e5ae38",
+    "#A60628",
+    "#30a2da",
+    "#008080",
+    "#7A68A6",
+    "#CF4457",
+    "#188487",
+    "#E24A33"
+  ],
+  "axes.facecolor": "#ffffff",
+  "axes.labelsize": "large",
+  "axes.axisbelow": true,
+  "axes.grid": true,
+  "patch.edgecolor": "#f0f0f0",
+  "axes.titlesize": "x-large",
+  "examples.directory": "",
+  "figure.facecolor": "#ffffff",
+  "grid.linestyle": "-",
+  "grid.linewidth": 2.0,
+  "grid.color": "#cbcbcb",
+  "axes.edgecolor":"#f0f0f0",
+  "xtick.major.size": 0,
+  "xtick.minor.size": 0,
+  "ytick.major.size": 0,
+  "ytick.minor.size": 0,
+  "axes.linewidth": 3.0,
+  "font.size":14.0,
+  "lines.linewidth": 3,
+  "lines.solid_capstyle": "butt",
+  "savefig.edgecolor": "#f0f0f0",
+  "savefig.facecolor": "#f0f0f0",
+  "figure.subplot.left"    : 0.08,
+  "figure.subplot.right"   : 0.95, 
+  "figure.subplot.bottom"  : 0.07,
+  "figure.subplot.hspace"  : 0.5,
+  "legend.scatterpoints" : 1
+}
+

code/book_format.py

@@ -0,0 +1,99 @@
+"""
+# -*- coding: utf-8 -*-
+
+"""
+
+from __future__ import (absolute_import, division, print_function,
+                        unicode_literals)
+
+from contextlib import contextmanager
+from IPython.core.display import HTML
+import json
+import matplotlib.pylab as pylab
+import matplotlib.pyplot as plt
+import numpy as np
+import os.path
+import sys
+import warnings
+
+# recent matplotlibs are raising deprecation warnings that
+# we don't worry about.
+warnings.filterwarnings("ignore")
+
+
+sys.path.insert(0, './code') # allow us to import book_format
+
+
+def equal_axis():
+    pylab.rcParams['figure.figsize'] = 10,10
+    plt.axis('equal')
+
+
+def reset_axis():
+    pylab.rcParams['figure.figsize'] = 11, 4
+
+def set_figsize(x=11, y=4):
+    pylab.rcParams['figure.figsize'] = x, y
+
+
+@contextmanager
+def figsize(x=11, y=4):
+    """Temporarily set the figure size using 'with figsize(a,b):'"""
+
+    size = pylab.rcParams['figure.figsize']
+    set_figsize(x, y)
+    yield
+    pylab.rcParams['figure.figsize'] = size
+
+@contextmanager
+def numpy_precision(precision):
+	old = np.get_printoptions()['precision']
+	np.set_printoptions(precision=precision)
+	yield
+	np.set_printoptions(old)
+
+@contextmanager
+def printoptions(*args, **kwargs):
+    original = np.get_printoptions()
+    np.set_printoptions(*args, **kwargs)
+    yield
+    np.set_printoptions(**original)
+
+def _decode_list(data):
+    rv = []
+    for item in data:
+        if isinstance(item, unicode):
+            item = item.encode('utf-8')
+        elif isinstance(item, list):
+            item = _decode_list(item)
+        elif isinstance(item, dict):
+            item = _decode_dict(item)
+        rv.append(item)
+    return rv
+
+def _decode_dict(data):
+    rv = {}
+    for key, value in data.iteritems():
+        if isinstance(key, unicode):
+            key = key.encode('utf-8')
+        if isinstance(value, unicode):
+            value = value.encode('utf-8')
+        elif isinstance(value, list):
+            value = _decode_list(value)
+        elif isinstance(value, dict):
+            value = _decode_dict(value)
+        rv[key] = value
+    return rv
+
+
+def load_style(directory = '.', name='custom.css'):
+    if sys.version_info[0] >= 3:
+        s = json.load(open(os.path.join(directory, "538.json")))
+    else:
+        s = json.load(open(directory + "538.json"), object_hook=_decode_dict)
+    plt.rcParams.update(s)
+    reset_axis ()
+    np.set_printoptions(suppress=True)
+
+    styles = open(os.path.join(directory, name), 'r').read()
+    return HTML(styles)

code/columns.py

@@ -1,3 +1,5 @@
+from __future__ import print_function
+
 """This file contains code related to "Think Stats",
 by Allen B. Downey, available from greenteapress.com
 
@@ -47,7 +49,7 @@ def print_cols(cols):
     cols: list of columns
     """
     for i, col in enumerate(cols):
-        print i, col[0], col[1]
+        print(i, col[0], col[1])
 
 
 def make_col_dict(cols, names):