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This page shows the technical details of what happened when authorised researcher George Hickman requested one or more actions to be run against real patient data in the OpenSAFELY Demo 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
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.
Show Hide project.yaml
version: '3.0' expectations: population_size: 10000 actions: # actions to plot TPP-STP size generate_cohort_stppop: run: cohortextractor:latest generate_cohort --study-definition study_definition_1_stppop --output-dir=output/cohorts outputs: highly_sensitive: cohort: output/cohorts/input_1_stppop.csv plot_stppop: run: r:latest analysis/1-plot-stppop.R needs: [generate_cohort_stppop] outputs: moderately_sensitive: log: output/logs/log-1-plot-stppop.txt figure1: output/plots/plot_stppop_map.png figure2: output/plots/plot_stppop_bar.png # actions to plot deaths over time generate_cohort_deaths: run: cohortextractor:latest generate_cohort --study-definition study_definition_2_deaths --output-dir=output/cohorts outputs: highly_sensitive: cohort: output/cohorts/input_2_deaths.csv plot_deaths: run: r:latest analysis/2-plot-deaths.R needs: [generate_cohort_deaths] outputs: moderately_sensitive: log: output/logs/log-2-plot-deaths.txt figure: output/plots/plot_deaths.png # actions to plot gp activity over time generate_cohort_activity: run: cohortextractor:latest generate_cohort --study-definition study_definition_3_activity --index-date-range "2020-01-01 to 2020-09-01 by month" --output-dir=output/measures outputs: highly_sensitive: cohort: output/measures/input_3_activity_*.csv generate_measures_activity: run: cohortextractor:latest generate_measures --study-definition study_definition_3_activity --output-dir=output/measures needs: [generate_cohort_activity] outputs: moderately_sensitive: measure_csv: output/measures/measure_*.csv plot_activity: run: r:latest analysis/3-plot-activity.R needs: [generate_measures_activity] outputs: moderately_sensitive: log: output/logs/log-3-plot-activity.txt figure: output/plots/plot_*.png run_all: needs: [plot_stppop, plot_deaths, plot_activity] # In order to be valid this action needs to define a run commmand and # some output. We don't really care what these are but the below seems to # do the trick. run: cohortextractor:latest --version outputs: moderately_sensitive: whatever: project.yaml
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