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Job request: 20864

Organisation:
Bennett Institute
Workspace:
covid-diabetes-care
ID:
hjc65rayc3zohzqf
View repo View project.yaml

This page shows the technical details of what happened when the authorised researcher Caroline Walters 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

Pipeline

Show project.yaml 
version: '3.0'

expectations:
  population_size: 1000

actions:

  generate_dataset_2019:
    run: >
      ehrql:v0 
        generate-dataset analysis/dataset_definition_2019.py
        --output output/dataset_2019.arrow
    outputs:
      highly_sensitive:
        cohort: output/dataset_2019.arrow

  generate_dataset_2020:
    run: >
      ehrql:v0 
        generate-dataset analysis/dataset_definition_2020.py
        --output output/dataset_2020.arrow
    outputs:
      highly_sensitive:
        cohort: output/dataset_2020.arrow

  generate_dataset_2021:
    run: >
      ehrql:v0 
        generate-dataset analysis/dataset_definition_2021.py
        --output output/dataset_2021.arrow
    outputs:
      highly_sensitive:
        cohort: output/dataset_2021.arrow

  generate_dataset_2022:
    run: >
      ehrql:v0 
        generate-dataset analysis/dataset_definition_2022.py
        --output output/dataset_2022.arrow
    outputs:
      highly_sensitive:
        cohort: output/dataset_2022.arrow

  generate_dataset_2023:
    run: >
      ehrql:v0 
        generate-dataset analysis/dataset_definition_2023.py
        --output output/dataset_2023.arrow
    outputs:
      highly_sensitive:
        cohort: output/dataset_2023.arrow

  generate_report_notebook:
    run: jupyter:latest jupyter nbconvert /workspace/analysis/notebooks/summarise_dataset.ipynb --execute --to html --output-dir=/workspace/output --no-input --ExecutePreprocessor.timeout=86400
    needs: [generate_dataset_2019, generate_dataset_2020, generate_dataset_2021, generate_dataset_2022, generate_dataset_2023]
    outputs:
      moderately_sensitive:
        notebook: output/summarise_dataset.html
        prescribing_tables: output/prescribing*.csv
        totals_tables: output/totals*.csv

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 06:34:01

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

Job request

Status
Succeeded
Backend
TPP
Workspace
covid-diabetes-care
Requested by
Caroline Walters
Branch
main
Force run dependencies
Yes
Git commit hash
d78d87b
Requested actions
  • generate_dataset_2019
  • generate_dataset_2020
  • generate_dataset_2021
  • generate_dataset_2022
  • generate_dataset_2023
  • generate_report_notebook

Code comparison

Compare the code used in this job request