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Code refactor post ipci run#22

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sumiyaabdi wants to merge 6 commits into
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ipci-fixes
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Code refactor post ipci run#22
sumiyaabdi wants to merge 6 commits into
developfrom
ipci-fixes

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@sumiyaabdi sumiyaabdi commented May 4, 2026

  • change parts of the code that break when referencing a db (e.g. cdm$cohort) to be dplyr functions (e.g. cdm %>% dplyr::select(cohort)
  • add dependencies to DESCRIPTION and Dockerfile
  • fix saving output files into results folder
  • add flags for which cohorts to run
  • add TestGenerator code to codeToRun.R for testing within docker container

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@sumiyaabdi sumiyaabdi requested a review from ablack3 May 4, 2026 12:30
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