Initial class-ification of calc.py
Add coments to python functions.
Fix formatting issues.
Rename db.py -> insert.py
Create new db.py to hold dbManager class and extract it from calc.py
Actually add insert.py
Add some detail to the help messages given by the program.
Make calc command store results in results table by default.
Add switch to make calc command output to stdout instead of results table.
Change dbManager to use a commit() function instead of __del__().
Changed main function names to match the file names.
Change calculation to accept a job UUID (just a string) for input
into the database instead of generating a timestamp. Use the -j
switch to supply it. Technically this shouldn't be required if you
use the -o switch, but I didn't bother to codify that.
Fix silly errors.
Change import style to fit celery import of BioPython
Celeryify codonpdx module
gave a sensible name to the celery app object
Count:
Add option to name the output file
Function also returns the output JSON; may be useful later but if not it can be removed

Insert:
Allow insertion into the 'input' table
Function also returns the organism information; used by tasks to identify the name of the organism. If it turns out this is all we need, then in the future we can return only that information.

Calc:
Add option for the database table the virus comes from (default 'input')

Celery:
Rename celery.py to celeryapp.py due to weird name conflict with celery module when importing, may be able to fix this in an alternate way later
Fix formatting in celeryconfig.py

Tasks:
Fix some formatting
Update trigger_demo_behavior to run the full process of count -> insert -> calc

Requirements:
Add celery to requirements list
Add __del__, __enter__, and __exit__ methods to dbManager
Fix calc to use with-as statement for scoping the dbManager
instance.
Restored name to celery for targeting
Refactor insert to use my dbManager class
Fix pep8 complaints
Added launch celery worker example in README.md
Replace test tasks with a health_check() task