Improve regionfilter performance
Description
Closes issues: Related issues:
Improves the region filter performance by 3x by narrowing region comparison to within the transcript(s) each allele is located in, rather than comparing all regions in whole chromosome.
Manually tested on 100 000 variants, comparing with and without these changes.
Notes to reviewer
Type of change
Application (affects UI or general functionality):
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New feature -
Bug fix -
Improvement
Ops / admin / CI related only (not impacting users):
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New feature -
Bug fix -
Improvement
Tests
General
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Tests have been added that prove my fix is effective or that my feature works -
Related tests have been modified/removed
Hypothesis testing:
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Soak testing has been done -
Distribution between positive / negative cases has been checked
Database
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Includes changes to database schema -
Includes necessary database migrations
Configuration
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Includes changes to configuration -
Includes configuration migration instructions in documentation
Merge checklist
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Self-review of code performed -
Feature review against specification (if applicable) -
Need for documentation has been evaluated and, if necessary, updated -
Code and implementation is reviewed by other core developer (all changes, inc. changes based on initial review)
Edited by Svein Tore Koksrud Seljebotn