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Job request: 2505

Organisation:
Bennett Institute
Workspace:
emis-qa-main
ID:
qlzgpqmutw6sbqti
View repo View project.yaml

This page shows the technical details of what happened when the authorised researcher Iain Dillingham 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 --output-format feather --study-definition study_definition
    outputs:
      highly_sensitive:
        cohort: output/input.feather

  rotate_study_population:
    run: python:latest python analysis/rotate_study_population.py
    needs: [generate_study_population]
    outputs:
      highly_sensitive:
        cohort: output/input-last.feather

  generate_summary_notebook:
    run: python:latest jupyter nbconvert notebooks/summary.ipynb --to=html --output-dir=output/ --execute --ExecutePreprocessor.timeout=86400
    needs: [generate_study_population, rotate_study_population]
    outputs:
      moderately_sensitive:
        notebook: output/summary.html

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 00:43:44

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

Job request

Status
Succeeded
Backend
EMIS
Workspace
emis-qa-main
Requested by
Iain Dillingham
Branch
main
Force run dependencies
No
Git commit hash
28d4355
Requested actions
  • generate_study_population

Code comparison

Compare the code used in this job request