API: resizable HDF5 object
DOC: more doc
incremental...
Merge branch 'master' of github.com:biocore/qiita into demux

Conflicts:
	setup.py
Fix a bunch of flake8 things
Modifying database so the reference table now uses the filepath table to store the sequence/taxonomy/tree filepath
Merge branch 'master' of github.com:qiime/QiiTa into ref_obj
Merge branch 'master' of https://github.com/biocore/qiita into flake8_fixes

Conflicts:
	qiita_db/test/test_study.py
	qiita_pet/handlers/analysis_handlers.py
More fixes...
add logging capability to job runs
more logging
put old context back
Merge branch 'master' of github.com:biocore/qiita into demux

Conflicts:
	setup.py
All the things
fix job error logger and use that
fix import error
Stub out handlers for more Study Menu actions
Change form action to reflect new URI
Add new Study menu actions
Link new handlers to URIs in webserver