Fix some pytest coverage path issues

[jeremyestein]

This allows codecov to show line by line coverage data, and it makes the merging of coverage data from docker work properly, which is now showing a much higher number 😃 🚀

Line by line example

[codecov]

Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 69.92%. Comparing base (785e29a) to head (994a627).
⚠️ Report is 2 commits behind head on dev.

Additional details and impacted files

@@             Coverage Diff             @@
##              dev     #101       +/-   ##
===========================================
+ Coverage   51.42%   69.92%   +18.49%     
===========================================
  Files          14       14               
  Lines         595      675       +80     
  Branches       48       61       +13     
===========================================
+ Hits          306      472      +166     
+ Misses        273      184       -89     
- Partials       16       19        +3     

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