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allow backfilling of counts and rpkm without triggering preprocessing

Open ppavlidis opened this issue 2 years ago • 2 comments

To address curation issue 362.

By using the the noLog2cpm option for RNASeqDataAddCli should allow us to backfill counts and rpkm for old data sets in a minimally-invasive way.

Needs testing.

TODO

  • [x] unit test for the CLI tool and argument parsing
  • [x] unit test for skipping log2cpm recomputation and post-processing
  • [ ] test case when library size differs

ppavlidis avatar Jul 17 '23 18:07 ppavlidis

Ideally we would just compare the log2cpm with the new one and trigger post-processing if they differ.

I'll write some unit tests for the CLI.

arteymix avatar Jul 24 '23 18:07 arteymix

I'll write unit tests instead of adding an integration test because it's impractical to check if the preprocessing service has been interacted with.

arteymix avatar Jul 25 '23 03:07 arteymix