Skip to content

Job request: 415

Organisation:
Bennett Institute
Workspace:
restoration-observatory-emis-tpp-test
ID:
tpa6fwz3d5kx4cm2
View repo View project.yaml

This page shows the technical details of what happened when the authorised researcher Helen Curtis 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:
# for testing in command line use:
# cohortextractor generate_cohort --index-date-range "2020-01-01 to 2020-12-01 by month" --output-dir output/measures/tpp --expectations-population 2000 --study-definition study_definition_tpp
# followed by:
#  cohortextractor generate_measures --output-dir output/measures/tpp --study-definition study_definition_tpp


  generate_study_population:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_tpp --index-date-range "2020-01-01 to 2020-11-01 by month" --output-dir=output/measures/tpp
    outputs:
      highly_sensitive:
        cohort: output/measures/tpp/input_*.csv

  generate_measures:
    run: cohortextractor:latest generate_measures --study-definition study_definition_tpp --skip-existing --output-dir=output/measures/tpp
    needs: [generate_study_population]
    outputs:
      moderately_sensitive:
        measure_csv: output/measures/tpp/measure_*.csv
        
  generate_notebook:
    run: jupyter:latest jupyter nbconvert /workspace/notebooks/event_incidence.ipynb --execute --to html --output-dir=/workspace/output --ExecutePreprocessor.timeout=86400
    needs: [generate_measures]
    outputs:
      moderately_sensitive:
        notebook: output/event_incidence.html

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 00:00:02

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

Job request

Status
Succeeded
Backend
TPP
Workspace
restoration-observatory-emis-tpp-test
Requested by
Helen Curtis
Branch
notebooks
Force run dependencies
No
Git commit hash
597f8f2
Requested actions
  • generate_notebook

Code comparison

Compare the code used in this job request