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Job request: 11380

Organisation:
Bennett Institute
Workspace:
dmd_codelist_investigation
ID:
qtk3mnpywyrltv6t

This page shows the technical details of what happened when authorised researcher Jon Massey requested one or more actions to be run against real patient data in the 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

Pipeline

Show project.yaml
version: '3.0'

expectations:
  population_size: 1000

actions:

  generate_study_population_2019:
    run: cohortextractor:latest generate_cohort --study-definition study_definition --index-date-range "2019-01-01" --output-format=csv.gz
    outputs:
      highly_sensitive:
        cohort: output/input_2019-01-01.csv.gz

  generate_study_population_2020:
    run: cohortextractor:latest generate_cohort --study-definition study_definition --index-date-range "2020-01-01" --output-format=csv.gz
    outputs:
      highly_sensitive:
        cohort: output/input_2020-01-01.csv.gz

  generate_study_population_2021:
    run: cohortextractor:latest generate_cohort --study-definition study_definition --index-date-range "2021-01-01" --output-format=csv.gz
    outputs:
      highly_sensitive:
        cohort: output/input_2021-01-01.csv.gz

  generate_study_population_2022:
    run: cohortextractor:latest generate_cohort --study-definition study_definition --index-date-range "2022-01-01" --output-format=csv.gz
    outputs:
      highly_sensitive:
        cohort: output/input_2022-01-01.csv.gz

  run_counts:
    run: python:latest python analysis/counts.py
    needs: [generate_study_population_2019, generate_study_population_2020, generate_study_population_2021, generate_study_population_2022]
    outputs:
      moderately_sensitive:
        counts_2019:
          output/counts_2019.csv
        counts_2020:
          output/counts_2020.csv
        counts_2021:
          output/counts_2021.csv
        counts_2022:
          output/counts_2022.csv

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 81:35:57

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

Job information

Status
Succeeded
Backend
TPP
Requested by
Jon Massey
Branch
main
Force run dependencies
No
Git commit hash
7063354
Requested actions
  • run_counts

Code comparison

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