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Job request: 2111

Organisation:
Bennett Institute
Workspace:
long-covid-historical-health
ID:
nqrpj3luxobm65cc
View repo View project.yaml

This page shows the technical details of what happened when the authorised researcher Alex Walker requested one or more actions to be run against real patient data within a secure environment.

By cross-referencing the list of jobs with the pipeline section below, you can infer what security level the outputs were written to.

The output security levels are:

  • highly_sensitive
    • Researchers can never directly view these outputs
    • Researchers can only request code is run against them
  • moderately_sensitive
    • Can be viewed by an approved researcher by logging into a highly secure environment
    • These are the only outputs that can be requested for public release via a controlled output review service.

Jobs

Pipeline

Show project.yaml 
version: '3.0'

expectations:
  population_size: 5000

actions:

  generate_cohort:
    run: cohortextractor:latest generate_cohort --output-format dta
    outputs:
      highly_sensitive:
        cohort: output/input.dta

  count_by_strata:
    run: python:latest python analysis/all_time_counts.py
    needs: [generate_cohort]
    outputs:
      moderately_sensitive:
        table: output/counts_table.csv

  logistic_models:
    run: stata-mp:latest analysis/model.do ""
    needs: [generate_cohort]
    outputs:
      moderately_sensitive:
        table: output/model_summary.csv

  select_cohorts:
    run: stata-mp:latest analysis/select_cohorts.do ""
    needs: [generate_cohort]
    outputs:
      moderately_sensitive:
        cohort_before_may: output/input_before_may.dta
        cohort_after_may: output/input_after_may.dta

  logistic_models_before_may:
    run: stata-mp:latest analysis/model.do "_before_may"
    needs: [select_cohorts]
    outputs:
      moderately_sensitive:
        table: output/model_summary_before_may.csv

  logistic_models_after_may:
    run: stata-mp:latest analysis/model.do "_after_may"
    needs: [select_cohorts]
    outputs:
      moderately_sensitive:
        table: output/model_summary_after_may.csv

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 00:17:48

These timestamps are generated and stored using the UTC timezone on the TPP backend.

Job request

Status
Succeeded
Backend
TPP
Workspace
long-covid-historical-health
Requested by
Alex Walker
Branch
main
Force run dependencies
No
Git commit hash
9c06a9b
Requested actions
  • select_cohorts
  • logistic_models_before_may
  • logistic_models_after_may

Code comparison

Compare the code used in this job request