This page shows the technical details of what happened when authorised researcher Helen Curtis requested one or more actions to be run against real patient data in the project, within a secure environment.
By cross-referencing the indicated Requested Actions with the
Pipeline section below, you can infer what
various outputs were written to. Outputs marked as
can never be viewed directly by a researcher; they can only
request that code runs against them. Outputs marked as
can be viewed by an approved researcher by logging into a highly
secure environment. Only outputs marked as
can be requested for release to the public, via a controlled
output review service.
version: '3.0' expectations: population_size: 10000 actions: generate_study_population: run: cohortextractor:latest generate_cohort --study-definition study_definition outputs: highly_sensitive: cohort: output/input.csv cohort_checks: run: python:latest python analysis/cohort_checks.py needs: [generate_study_population] outputs: moderately_sensitive: cohort: output/cohort_checks.csv transform: run: python:latest python analysis/transform.py output/input.csv needs: [generate_study_population] outputs: highly_sensitive: cohort: output/cohort*.pickle count_prevalences: run: python:latest python analysis/count_prevalences.py needs: [transform] outputs: moderately_sensitive: table: output/*/tables/prevalences.csv compute_uptake_for_paper: run: python:latest python analysis/compute_uptake_for_paper.py needs: [transform] outputs: moderately_sensitive: cohort: output/*/cumulative_coverage/*/*/*.csv generate_additional_outputs: run: python:latest python analysis/run_additional_charts.py needs: [transform] outputs: moderately_sensitive: additional_charts: output/*/additional_figures/*.png prac_tables: output/*/additional_figures/*.csv generate_outputs: run: python:latest python analysis/run_charts_and_tables.py needs: [transform, compute_uptake_for_paper] outputs: moderately_sensitive: charts: output/*/charts/*.png #reports: output/*/reports/*.html tables: output/*/tables/*.csv
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