This page shows the technical details of what happened when authorised researcher Venexia Walker requested one or more actions to be run against real patient data in the post-covid-vaccinated 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: 500000 actions: active_analyses: run: r:latest analysis/active_analyses.R outputs: highly_sensitive: active_analyses: output/active_analyses.rds vax_eligibility_inputs: run: r:latest analysis/vax_eligibility_inputs.R outputs: highly_sensitive: vax_study_dates_json: output/vax_study_dates.json vax_jcvi_groups: output/vax_jcvi_groups.csv vax_eligible_dates: output/vax_eligible_dates.csv generate_study_population_electively_unvaccinated: run: cohortextractor:latest generate_cohort --study-definition study_definition_electively_unvaccinated --output-format feather needs: [vax_eligibility_inputs] outputs: highly_sensitive: cohort: output/input_electively_unvaccinated.feather generate_study_population_vaccinated: run: cohortextractor:latest generate_cohort --study-definition study_definition_vaccinated --output-format feather outputs: highly_sensitive: cohort: output/input_vaccinated.feather generate_study_population_index: run: cohortextractor:latest generate_cohort --study-definition study_definition_index --output-format feather outputs: highly_sensitive: cohort: output/input_index.feather preprocess_data: run: r:latest analysis/preprocess_data.R needs: [generate_study_population_index, generate_study_population_vaccinated, generate_study_population_electively_unvaccinated] outputs: moderately_sensitive: describe: output/describe_*.txt highly_sensitive: cohort: output/input_*.rds venn: output/venn_*.rds stage1_data_cleaning_both: run: r:latest analysis/Stage1_data_cleaning.R both needs: [preprocess_data] outputs: moderately_sensitive: refactoring: output/meta_data_factors_*.csv QA_rules: output/QA_summary_*.csv IE_criteria: output/Cohort_flow_*.csv highly_sensitive: cohort: output/input_*_stage1.rds stage2_missing_table1_both: run: r:latest analysis/Stage2_missing_table1.R both needs: [stage1_data_cleaning_both] outputs: moderately_sensitive: Missing_RangeChecks: output/Check_missing_range_*.csv DateChecks: output/Check_dates_range_*.csv Descriptive_Table: output/Table1_*.csv stage4_table2_both: run: r:latest analysis/table_2.R both needs: [active_analyses, stage1_data_cleaning_both] outputs: moderately_sensitive: table2: output/table2_*.csv venn_both: run: r:latest analysis/venn_diagram.R both needs: [active_analyses, preprocess_data, stage1_data_cleaning_both] outputs: moderately_sensitive: venn_digram: output/venn_diagram_*.svg venn_diagram_number_check: output/venn_diagram_number_check_*.csv
State is inferred from the related Jobs.
Timings set to UTC timezone.
- Runtime: 12:08:32