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Job request: 15907

Organisation:
Swansea University
Workspace:
sle-outcomes-swansea
ID:
33zfzgpk2orbjoh6
View repo View project.yaml

This page shows the technical details of what happened when the authorised researcher Michael Parker 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: 1000

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

  clean_study_population:
    run: r:latest analysis/1_cohort_cleaning.R
    needs: [generate_study_population]
    outputs:
      moderately_sensitive:
        cohort: output/cohort_demo.csv

  # simple_regression:
  #   run: r:latest analysis/3_simple_regression.R
  #   needs: [generate_study_population, clean_study_population]
  #   outputs:
  #     highly_sensitive:
  #       cohort: output/simple_regression.csv

  # describe:
  #   run: r:latest analysis/2_report.R
  #   needs: [generate_study_population]
  #   outputs:
  #     moderately_sensitive:
  #       cohort: output/descriptive.png
  #       cohort1: output/sex.png

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 00:11:12

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

Job request

Status
Succeeded
Backend
TPP
Workspace
sle-outcomes-swansea
Requested by
Michael Parker
Branch
main
Force run dependencies
No
Git commit hash
e890d31
Requested actions
  • clean_study_population

Code comparison

Compare the code used in this job request