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Job request: 22577

Organisation:
PHC, University of Oxford
Workspace:
mainroute_cancer
ID:
uq4rcbyxmpoe6ixm
View repo View project.yaml

This page shows the technical details of what happened when authorised researcher Emma Mi 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 
# Ignore this`expectation` block. It is required but not used, and will be removed in future versions.
expectations:

  population_size: 10000

version: '3.0'

actions:

  generate_dataset_table:
    run: ehrql:v1 generate-dataset analysis/define_static_dataset.py 
      --output output/data/dataset_static.csv.gz
    outputs:
      highly_sensitive:
        cohort: output/data/dataset_static.csv.gz  

  measures_demo:
    run: ehrql:v1 generate-measures analysis/measures_demo.py
      --output output/measures/measures_demo.csv
      --
      --start-date "2018-03-23"
      --intervals 67
    outputs:
      moderately_sensitive:
        measure_csv: output/measures/measures_demo.csv

  measures_demo_imd:
    run: ehrql:v1 generate-measures analysis/measures_demo_imd.py
      --output output/measures/measures_demo_imd.csv
      --
      --start-date "2018-03-23"
      --intervals 67
    outputs:
      moderately_sensitive:
        measure_csv: output/measures/measures_demo_imd.csv
  
  measures_symptoms:
    run: python:latest python analysis/descriptive/measures_symptoms_processing.py
    needs: [measures_demo_imd]
    outputs:
      moderately_sensitive:
        table: output/measures/measures_demo_imd_symptoms.csv
  
  measures_cancer_conversion:
    run: python:latest python analysis/descriptive/measures_cancer_processing.py
    needs: [measures_demo_imd]
    outputs:
      moderately_sensitive:
        table: output/measures/measures_demo_imd_cancerconversion.csv

  cohort_descriptive_whole:
    run: python:latest python analysis/descriptive/cohort_descriptive.py
    needs: [generate_dataset_table]
    outputs:
      moderately_sensitive:
        table: output/data/descriptive_whole_data.csv
  
  generate_referral_test:
    run: ehrql:v1 generate-dataset analysis/referral_test.py 
      --output output/data/referral_test.csv
    outputs:
      highly_sensitive:
        cohort: output/data/referral_test.csv
  
  descriptive_referral_test:
    run: python:latest python analysis/descriptive/sum_referral_test.py
    needs: [generate_referral_test]
    outputs:
      moderately_sensitive:
        table: output/data/summary_referral_test.csv

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 00:05:36

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

Job information

Status
Succeeded
Backend
TPP
Workspace
mainroute_cancer
Requested by
Emma Mi
Branch
main
Force run dependencies
Yes
Git commit hash
c567b2d
Requested actions
  • generate_referral_test
  • descriptive_referral_test

Code comparison

Compare the code used in this Job Request