Module refactor

[yashpatel6]

Description

Demonstration PR of using modules without addParams. As a note, the implementation is separate from the existing metadata passing that happens between processes; for a full implementation, existing metadata passing should be combined with the added metadata

Testing Results

• Single sample
  • sample:
  • input csv:
  • config:
  • output:
• N-T paired WGS
  • samples:
  • input csv:
  • config:
  • output:
• N-T targeted exome
  • sample:
  • input csv:
  • config:
  • output:

Checklist

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• I have added the changes included in this pull request to the CHANGELOG.md under the next release version or unreleased, and updated the date.

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• I have tested the pipeline on at least one A-mini sample.