Merge pull request #3 from stouffer/master

Daniel's adds a "speculative" Box 2
Update of the PDF
A very minor change in Bex 2: species abundance modify the realized (measured) int. strength in LV-type models"
Minor edits on the MS, but a new folder with a python script to play with the statistical model
Test to generate a networkx graph
Filename change
changed the simulation model
RM output file
Remove nodes with no links
Move things around
Still not working quite properly, but I have ideas about how to fix it
Another approach
Clarification of the epsilon term in models of box 1
Updated Box 2, with some references to the models in Box 1
Removed the old discussion
Changes to the discussion
PDF updated
adding an ifelse to the Makefile to check for Tim's bibliography file