Add flake8 & Format Files to be compliant

[lwasser]

@nkorinek i'm adding flake8 here... be prepared to catch a LOT of other things we've missed!!

[codecov[bot]]

Codecov Report

:exclamation: No coverage uploaded for pull request base (master@936980a). Click here to learn what that means. The diff coverage is n/a.

@@            Coverage Diff            @@
##             master     #196   +/-   ##
=========================================
  Coverage          ?   69.63%           
=========================================
  Files             ?       17           
  Lines             ?     1561           
  Branches          ?        0           
=========================================
  Hits              ?     1087           
  Misses            ?      474           
  Partials          ?        0

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[lwasser]

@nkorinek i merged this locally. there were a bunch of merge conflicts! please in the future

1. be sure that a PR is a WIP until it passes CI and there are NO MERGE CONFLICTS! then i will look at it
2. before doing any editing always update from the branch that you are working on! I think we have one file left: base to edit!! i'll let you do that tomorrow or monday whenever you have time!

Thank you for your work on this.

[nkorinek]

@lwasser sorry!! That's my mistake, I'll try to be more careful in the future

[lwasser]

closign this as i believe it was merged in another pr