refactor: filters for wgs and identify research outputs for all workflows

[khurrammaqbool]

This PR:

Changed: Moved part of quality filtering to pre-annotation and added research to identify the research outputs.

Review and tests:

• Tests pass
• Code review
• New code is executed and covered by tests, and test approve

[codecov]

Codecov Report

Base: 99.24% // Head: 99.24% // No change to project coverage 👍

Coverage data is based on head (2585be1) compared to base (bdd580f).
Patch has no changes to coverable lines.

Additional details and impacted files

@@           Coverage Diff            @@
##           develop    #1007   +/-   ##
========================================
  Coverage    99.24%   99.24%           
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  Files           28       28           
  Lines         1730     1730           
========================================
  Hits          1717     1717           
  Misses          13       13           

Flag	Coverage Δ
unittests	99.24% <ø> (ø)

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Impacted Files	Coverage Δ
BALSAMIC/constants/workflow_rules.py	100.00% <ø> (ø)

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[ivadym]

Look good, well done 💯 🎖️

Left you some comments about the housekeeper tags, that I believe should be changed to research since we'll be adding clinical specific files

[sonarqubecloud]

Kudos, SonarCloud Quality Gate passed!   

0 Bugs
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No Coverage information
0.0% Duplication