This page shows the technical details of what happened when authorised researcher Elsie Horne requested one or more actions to be run against real patient data in the COVID-19 Vaccine Effectiveness project, within a secure environment.

By cross-referencing the indicated Requested Actions with the Pipeline section below, you can infer what security level various outputs were written to. Outputs marked as highly_sensitive can never be viewed directly by a researcher; they can only request that code runs against them. Outputs marked as moderately_sensitive can be viewed by an approved researcher by logging into a highly secure environment. Only outputs marked as moderately_sensitive can be requested for release to the public, via a controlled output review service.

Jobs

ID Status Action
dalymaquocu5iz5b succeeded plot_2nd_vax_dates

Pipeline

Show Hide project.yaml
version: '3.0'

expectations:
  population_size: 10000

actions:

  design:
    run: r:latest analysis/design.R
    outputs:
      highly_sensitive:
        study_dates_json: output/lib/study_dates.json
        study_dates_rds: output/lib/study_dates.rds
        jcvi_groups: output/lib/jcvi_groups.csv
        elig_dates: output/lib/elig_dates.csv

  generate_study_population:
    run: cohortextractor:latest generate_cohort --study-definition study_definition
    needs: 
    - design
    outputs:
      highly_sensitive:
        cohort: output/input.csv
        
  eda_2nd_vax_dates:
    run: r:latest analysis/explore_2nd_vax_dates.R
    needs:
    - design
    - generate_study_population
    outputs:
      moderately_sensitive:
        data_properties: output/explore_2nd_vax_dates/data/data_processed_tabulate.txt
        plot_data: output/explore_2nd_vax_dates/data/plot_data_redacted.csv

  plot_2nd_vax_dates:
    run: r:latest analysis/plot_2nd_vax_dates.R
    needs:
    - design
    - generate_study_population
    - eda_2nd_vax_dates
    outputs:
      moderately_sensitive:
        plots: output/explore_2nd_vax_dates/images/second_vax_dates_*.png

State

State is inferred from the related Jobs.

Status: Succeeded

Timings

Timings set to UTC timezone.

  • Created:
  • Started:
  • Finished:
  • Runtime: 00:01:07

Config