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openvax / neoantigen-vaccine-pipeline

Bioinformatics pipeline for selecting patient-specific cancer neoantigen vaccines
Apache License 2.0
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Have a flag for whether to parallelize IndelRealigner #55

Closed julia326 closed 6 years ago

julia326 commented 6 years ago

Not obvious that it's a speedup to run one IndelRealigner task per chromosome; want to be able to override, esp for test data

julia326 commented 6 years ago

Fixed; by default, will not be parallelized. Controlled by parallel_indel_realigner flag in sample JSON config.