RFC79: Incremental Upload of Data Entries

[forus]

See also RFC79

The solution involves extending the current metaImport.py script and java data loader commands with additional flags to support the incremental upload of entries. This approach allows users to add patients, samples, and molecular data without having to reupload the entire study.

Read more in docs https://github.com/cBioPortal/cbioportal/pull/10816

To review in logical parts and see previous discussions about the implementation, you might want to check the chain of closed PRs this PR consists of:

• Incremental data upload for mutations, case lists, patient and sample attributes
• (1/7) RFC 79: Implement incremental upload of tab delimited data.
• (2/7) RFC79: Make study_es_0_inc data pass validation
• (3/7) RFC79: Implement incremental upload for timeline data
• (4/7) RFC79: Implement incremental upload of CNA DISCRETE long data
• (5/7) RFC79: Implement incremental upload for gene panel matrix
• (6/7) RFC79: Implement incremental upload of structural variants data
• (7/7) RFC79: Implement incremental upload of CNA segmented data
• RFC79: Implement feedback from previous 7 PRs

[forus]

@pieterlukasse Thanks! Please have another look.

[sheridancbio]

I will try to review this.

One quick comment - when it comes time to merge this PR I hope we use "squash and merge" rather than merging in the individual changesets.