Add qc extras

[sickler-alex]

Description

Please include a summary of the change and which issue is fixed. Please also include relevant motivation and context. List any dependencies that are required for this change.

Create a tool to calculate % Q20 and %Q30 from raw fastqc data.

Fixes # 866 (partially)

Type of change

Please delete options that are not relevant.

• [ ] Bug fix (non-breaking change which fixes an issue)
• [X] New feature (non-breaking change which adds functionality)
• [ ] Breaking change (fix or feature that would cause existing functionality to not work as expected)
• [ ] This change requires a documentation update

How Has This Been Tested?

Please describe the tests that you ran to verify your changes. Provide instructions so we can reproduce. Please also list any relevant details for your test configuration

• [X] https://cavatica.sbgenomics.com/u/d3b-bixu/dev-sample-qc/tasks/2fe00a0a-1069-4d02-aff4-a33e3f7c395d/#

Test Configuration:

• Environment:
• Test files:

Checklist:

• [X] My code follows the style guidelines of this project
• [X] I have performed a self-review of my own code
• [X] I have commented my code, particularly in hard-to-understand areas
• [ ] I have made corresponding changes to the documentation
• [X] My changes generate no new warnings
• [X] I have added tests that prove my fix is effective or that my feature works
• [ ] New and existing unit tests pass locally with my changes
• [ ] Any dependent changes have been merged and published in downstream modules
• [X] I have checked my code and corrected any misspellings

[sickler-alex]

@NHJohnson I agree. I toyed around with the idea of making something to automatically insert a script / file into that section in the cwl tool, but decided not to since I wasn't super familiar with cwl yet. I might revisit that.