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Final cleanups responding to Brian's code review....
Final cleanups responding to Brian's code review. The code isn't perfect yet, but good enough for integration into trunk so Evan and the others can start using it. I've noted at the top a few key todo items left to think about.

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ipgraph.txt
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====================================================
Notes on code execution in :class:`InteractiveShell`
====================================================
Overview
========
This section contains information and notes about the code execution
system in :class:`InteractiveShell`. This system needs to be refactored
and we are keeping notes about this process here.
Current design
==============
Here is a script that shows the relationships between the various
methods in :class:`InteractiveShell` that manage code execution::
import networkx as nx
import matplotlib.pyplot as plt
exec_init_cmd = 'exec_init_cmd'
interact = 'interact'
runlines = 'runlines'
runsource = 'runsource'
runcode = 'runcode'
push_line = 'push_line'
mainloop = 'mainloop'
embed_mainloop = 'embed_mainloop'
ri = 'raw_input'
prefilter = 'prefilter'
g = nx.DiGraph()
g.add_node(exec_init_cmd)
g.add_node(interact)
g.add_node(runlines)
g.add_node(runsource)
g.add_node(push_line)
g.add_node(mainloop)
g.add_node(embed_mainloop)
g.add_node(ri)
g.add_node(prefilter)
g.add_edge(exec_init_cmd, push_line)
g.add_edge(exec_init_cmd, prefilter)
g.add_edge(mainloop, exec_init_cmd)
g.add_edge(mainloop, interact)
g.add_edge(embed_mainloop, interact)
g.add_edge(interact, ri)
g.add_edge(interact, push_line)
g.add_edge(push_line, runsource)
g.add_edge(runlines, push_line)
g.add_edge(runlines, prefilter)
g.add_edge(runsource, runcode)
g.add_edge(ri, prefilter)
nx.draw_spectral(g, node_size=100, alpha=0.6, node_color='r',
font_size=10, node_shape='o')
plt.show()