moved a lot of files to folders that will mesh with the directory structure intended...

moved a lot of files to folders that will mesh with the directory structure intended for the master branch, in case we merge this in.

A bunch of things still need to be done. The software engineering
section isn't completely moved and the readmes are still in rst rather
than md.

W. Trevor King: I dropped everything from the original 00149bc except
for the testing/ rename, and some line-wrapping in the original commit
message.

Conflicts:
	debugging/Readme.md
	debugging/Readme.rst
	debugging/cacheTest.cc
	debugging/lint_example.py
	debugging/pdb_example.py
	debugging/profiler_example.py
	debugging/segfault_handled_example.py
	debugging/segfault_unhandled_example.py
	debugging/simpleTest.cc
	debugging/style_example.py
	debugging/tb_example.py
	documentation/Makefile
	documentation/Readme.md
	documentation/Readme.rst
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	documentation/_static/thwlogo-small.png
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	documentation/_themes/cloud_flash/static/toggle_sections.js
	documentation/_themes/cloud_flash/static/toggle_sidebar.js_t
	documentation/_themes/cloud_flash/theme.conf
	documentation/close_line.py
	documentation/close_line.rst
	documentation/conf.py
	documentation/index.rst
	documentation/sphinxext/LICENSE.txt
	documentation/sphinxext/__init__.py
	documentation/sphinxext/apigen.py
	documentation/sphinxext/comment_eater.py
	documentation/sphinxext/compiler_unparse.py
	documentation/sphinxext/docscrape.py
	documentation/sphinxext/docscrape.pyc
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	documentation/sphinxext/docscrape_sphinx.pyc
	documentation/sphinxext/inheritance_diagram.py
	documentation/sphinxext/ipython_console_highlighting.py
	documentation/sphinxext/ipython_console_highlighting.pyc
	documentation/sphinxext/ipython_directive.py
	documentation/sphinxext/numpydoc.py
	documentation/sphinxext/numpydoc.pyc
	documentation/sphinxext/phantom_import.py
	documentation/sphinxext/plot_directive.py
	documentation/sphinxext/setup.py
	documentation/sphinxext/traitsdoc.py
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	make/figure_html.mk
	make/kepler_planets.csv
	make/kepler_planets.png
	make/make_html.py
	make/make_plots.py
	make/subset_by_name.py
	make/template.html
	python/intro/Exercises.ipynb
	python/intro/MakeAnimals.ipynb
	python/intro/PresenterNotes.ipynb
	python/intro/README.rst
	python/intro/animals.txt
	python/intro/big_animals.txt
	python/intro/dingwall_animals.txt
	python/intro/fergus_animals.txt
	python/intro/macguffin_animals.txt
	python/intro/merida_animals.txt
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