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Job request: 23011

Organisation:
Bennett Institute
Workspace:
therapeutics-risk-groups
ID:
r36r3rjxkexgtt6c
View repo View project.yaml

This page shows the technical details of what happened when the authorised researcher Becky Smith 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

  • Action:
    extract_casim
    Status:
    Status: Succeeded
    Job identifier:
    w7ssrl7phs3lejyc
  • Action:
    extract_sot
    Status:
    Status: Succeeded
    Job identifier:
    zlowjlbbpv6zkruz
  • Action:
    extract_mol
    Status:
    Status: Succeeded
    Job identifier:
    tc6zueg3mc2euirj
  • Action:
    parse_risk_groups
    Status:
    Status: Succeeded
    Job identifier:
    7qavrj2wopbtpmga

Pipeline

Show project.yaml 
version: '3.0'

# Ignore this`expectation` block. It is required but not used, and will be removed in future versions.
expectations:
  population_size: 1000

actions:
  extract_casim:
    run: >
      sqlrunner:latest
        analysis/extract_casim05_risk_group.sql
        --output output/casim05_risk_group.csv
        --dummy-data-file analysis/dummy/casim05_risk_group.csv
    outputs:
      moderately_sensitive:
        output: output/casim05_risk_group.csv

  extract_sot:
    run: >
      sqlrunner:latest
        analysis/extract_sot02_risk_group.sql
        --output output/sot02_risk_group.csv
        --dummy-data-file analysis/dummy/sot02_risk_group.csv
    outputs:
      moderately_sensitive:
        output: output/sot02_risk_group.csv

  extract_mol:
    run: >
      sqlrunner:latest
        analysis/extract_mol1_risk_group.sql
        --output output/mol1_risk_group.csv
        --dummy-data-file analysis/dummy/mol1_risk_group.csv
    outputs:
      moderately_sensitive:
        output: output/mol1_risk_group.csv
  
  parse_risk_groups:
    needs: [extract_casim, extract_sot, extract_mol]
    run: >
      python:v1 analysis/parse_risk_groups.py
    outputs:
      moderately_sensitive:
        output: output/risk_groups.csv

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 00:03:00

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

Job information

Status
Succeeded
Backend
TPP
Workspace
therapeutics-risk-groups
Requested by
Becky Smith
Branch
main
Force run dependencies
No
Git commit hash
bc710ef
Requested actions
  • extract_casim
  • extract_sot
  • extract_mol
  • parse_risk_groups

Code comparison

Compare the code used in this Job Request

  • No previous Job Request available for comparison