split generate-analysis-files.sh

[ewafula]

Purpose/implementation Section

What scientific question is your analysis addressing?

We need to split generate-analysis-files.sh into generate-analysis-files.sh and run-for-subtyping.sh

What was your approach?

• generate-analysis-files.sh creates pre-release analysis files and uploads on s3 bucket, analysis-files-pre-release folder for QC
• run-for-subtyping.sh creates pre-release files for subtyping, subtyping files, final release histologies.tsv, and the complete set of independent samples lists and uploads on s3 bucket, analysis-files-pre-release-commit folder for QC

What GitHub issue does your pull request address?

• split generate-analysis-files.sh ticket-tracker-OPC#500

Directions for reviewers. Tell potential reviewers what kind of feedback you are soliciting.

Which areas should receive a particularly close look?

Will need to test the v12 data files

Is there anything that you want to discuss further?

Requires old files on the s3 bucket in the analysis-files-pre-release and analysis-files-pre-release-commit folders to be deleted.

Is the analysis in a mature enough form that the resulting figure(s) and/or table(s) are ready for review?

Yes

Results

What types of results are included (e.g., table, figure)?

Pre-release data files

What is your summary of the results?

Will be available on the s3 bucket analysis-files-pre-release and analysis-files-pre-release-commit folders for QC and respective OPC analyses modules.

Reproducibility Checklist

• The dependencies required to run the code in this pull request have been added to the project Dockerfile.
• This analysis has been added to continuous integration.

Documentation Checklist

• This analysis module has a README and it is up to date.
• This analysis is recorded in the table in analyses/README.md and the entry is up to date.
• The analytical code is documented and contains comments.