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Job request: 4376

Organisation:
Public Health England
Workspace:
hest_os_study
ID:
4yp5qc4ef4spfti6
View repo View project.yaml

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

By cross-referencing the list of jobs with the pipeline section below, you can infer what security level various outputs were written to. Researchers can never directly view outputs marked as highly_sensitive ; 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

Pipeline

Show project.yaml 
version: '3.0'

expectations:
  population_size: 1000

actions:

  generate_study_population:
    run: cohortextractor:latest generate_cohort --study-definition study_definition
    outputs:
      highly_sensitive:
        cohort: output/input.csv

  descriptive_figures:
    run: r:latest analysis/report.R
    needs: [generate_study_population]
    outputs:
      moderately_sensitive:
        figure: output/descriptive.png
  
  descriptive_tables:
    run: r:latest analysis/full_table_script.R
    needs: [generate_study_population]
    outputs:
      moderately_sensitive:
        table_one: output/Table1.html
        table_one_one: output/Table1-1.html
        table_one_two: output/Table1-2.html
        table_one_three: output/Table1-3.html
        table_one_four: output/Table1-4.html
        table_one_five: output/Table1-5.html

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 00:01:38

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

Job information

Status
Failed
Backend
TPP
Workspace
hest_os_study
Requested by
Colm Andrews
Branch
main
Force run dependencies
No
Git commit hash
f214fce
Requested actions
  • descriptive_tables

Code comparison

Compare the code used in this Job Request