DEVELOP-641 Downgrade error level

[matrulda]

This PR adds to option to downgrade errors to warnings for specific handlers.

TODO: Make it possible to use this parameter through the web app.

Sharing this early so you can let me know if you have any thoughts on the solution.

EDIT: 191009 Downgrade error logic was moved to config.py and the functionality has been added to the web app too. This is ready for merge.

[codecov[bot]]

Codecov Report

Merging #84 into master will increase coverage by 1%. The diff coverage is 96%.

@@          Coverage Diff          @@
##           master    #84   +/-   ##
=====================================
+ Coverage      92%    92%   +1%     
=====================================
  Files          22     22           
  Lines         983   1001   +18     
=====================================
+ Hits          897    916   +19     
+ Misses         86     85    -1

Impacted Files	Coverage Δ
checkQC/web_app.py	81% <100%> (+2%)	:arrow_up:
checkQC/config.py	92% <100%> (+2%)	:arrow_up:
checkQC/app.py	90% <80%> (+2%)	:arrow_up:

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[johandahlberg]

This looks good! I guess the next step is to bring this into the webserver as well?

[matrulda]

Thanks! Yeah, working on it right now. :+1:

[matrulda]

Something like this @johandahlberg ? This implementation only supports downgrading errors for one handler though, maybe that's fine?

EDIT It actually works for multiple handlers too: curl http://localhost:9999/qc/<runfolder>/downgrade_errors\=\ReadsPerSampleHandler,UndeterminedPercentageHandler

Adding a test for that.

[matrulda]

@johandahlberg I tried naming of capture groups like we talked about, but it didn't work and I found little help docs (and on the internetz). The current solution works and is pretty clean, imo.