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Async MOI processing #400

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MattWellie opened this issue May 10, 2024 · 0 comments
Open

Async MOI processing #400

MattWellie opened this issue May 10, 2024 · 0 comments
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enhancement New feature or request

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@MattWellie
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Typical AIP projects have run through the MOI testing Stage in < 1 minute, so there's never been a need to optimise here. Now some of the larger Exome cohorts are taking ~30+ mins. The time has come to... OPTIMISE

  • we parse each chromosome in turn, reading all variants on the chromosome into in-memory objects. This creates a pretty huge memory footprint, but is manageable.
  • within each chromosome we process each gene in turn (all variants on the gene, through all appropriate MOIs)
  • this per-gene testing could be done in parallel as an asynchronous process. The variant objects are not edited once created, and results are returned as a list per gene. Seems like a good target for an async/await cycle.
@MattWellie MattWellie added the enhancement New feature or request label May 10, 2024
@MattWellie MattWellie self-assigned this May 10, 2024
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