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Job request: 23026

Organisation:
Bennett Institute
Workspace:
therapeutics-risk-groups
ID:
4j4t3jtot4prfgld
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 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'

# 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: 00:00:07

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

Job request

Status
Succeeded
Backend
TPP
Workspace
therapeutics-risk-groups
Requested by
Becky Smith
Branch
main
Force run dependencies
No
Git commit hash
47a6d43
Requested actions
  • parse_risk_groups

Code comparison

Compare the code used in this job request