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oncokb / oncokb-annotator

Annotates variants in MAF with OncoKB annotation.
GNU Affero General Public License v3.0
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added code for parallel #120

Closed HershGupta404 closed 3 years ago

HershGupta404 commented 3 years ago

I created new files as opposed to editing the original to help with debugging purposes. The code can be run from MafAnnotator_parallel, which adds an extra CLI flag for the number of processes.

A couple of things that might need fixing/QoL fixes:

  1. Starmap does not chunk the list in an obvious way- may need to change the logger keeping track of progress to better reflect actual progress.
  2. Random print lines that I used for debugging.

Let me know if there are any glaring errors!

HershGupta404 commented 3 years ago

Realized that there were a lot of updates to the code from your end- will update my code and resubmit