Updated documentation

run_af2/doc/html/.buildinfo

run_af2/doc/html/.doctrees/environment.pickle

run_af2/doc/html/.doctrees/index.doctree

run_af2/doc/html/.doctrees/run_singularity.doctree

run_af2/doc/html/_shared.html

run_af2/doc/html/_static/documentation_options.js

run_af2/doc/html/genindex.html

run_af2/doc/html/index.html

run_af2/doc/html/objects.inv

run_af2/doc/html/py-modindex.html

run_af2/doc/html/run_singularity.html

run_af2/doc/html/search.html

run_af2/doc/html/searchindex.js