Merge pull request #9 from tjhei/documentation_updates

Documentation updates to material
Move examples into new directory
Remove latex table stuff for the moment, not sure how to distribute, licensing, etc.
Add output_figures directory to git repo so that the examples run without the user needing to make it
Update gitignore
Move test outputs, update testing scripts.  What does gen_doc do?
Restore these
Move files to misc
Rework testing to run examples from example directory
Merge pull request #11 from ian-r-rose/examples_directory

Examples directory
fix test
improve test.sh and fix tests
Merge pull request #12 from tjhei/fix_tests

Looks good.
remove some of the table stuff, cleanup
also test stuff in misc/
update .gitignore
fix sphinx doc generation

We need an __init__.py otherwise sphinx can not import the examples...
Merge pull request #13 from tjhei/cleanup_misc

cleanup misc folder
code formatting
add doc