Metadata output update

Cumulative update focused on metadata output:

• Add read length: both submitter entered and inferred (median length)
• Add calculated read counts: both raw and assigned
• Add median TIN
• Output multiqc json (for future use)
• Convert gene symbols to Entrez ID: for data-hub convenience (use version specific metadata - added to references)
• Create bash script to initiate parallel replicate runs from study RID
• Change consistence tests for assigned reads exact match to being within +/- 1/100,000 of expected

PR checklist

• This comment contains a description of changes (with reason)
• If you've fixed a bug or added code that should be tested, add tests!
• Documentation in docs is updated
• Replace dag.png with the most recent CI pipleine integrated_pe artifact
• CHANGELOG.md is updated
• README.md is updated
• LICENSE.md is updated with new contributors
• Docker images moved to production release and changed in pipeline
• Docker images used in the CI unit tests match those used in pipeline

• Close issue
  Closes #52 (closed) Closes #56 (closed)

/cc @ghenry @venkat.malladi

Run in repo root dir: sh workflow/scripts/splitStudy.sh [studyRID]

It will run in parallel in batches of 5 replicatesRID (this can be changed in splitStudy.sh: xargs -P flag)

marked the checklist item This comment contains a description of changes (with reason) as completed

marked the checklist item If you've fixed a bug or added code that should be tested, add tests! as completed

marked the checklist item Documentation in docs is updated as completed

marked the checklist item Documentation in docs is updated as incomplete

marked the checklist item README.md is updated as completed

marked the checklist item *Close issue* as completed

unmarked as a Work In Progress

added 2 commits

• 506a006b - Update dag
• ade9acec - Change consistence test from exact match to within 1/100,000 change from expected

Compare with previous version

changed the description

marked the checklist item Docker images used in the CI unit tests match those used in pipeline as completed

marked the checklist item Replace dag.png with the most recent CI pipleine integrated_pe artifact as completed

added 1 commit

• 6341ca53 - Convert string to int for range checking in consistency test

Compare with previous version

merged

mentioned in commit fe51a743