Skip to content

Job request: 6262

Organisation:
NICE
Workspace:
nice-audit-bp
ID:
3ogpeegcwcexklvw
View repo View project.yaml

This page shows the technical details of what happened when the authorised researcher Robert Willans 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_study_population:
    run: cohortextractor:latest generate_cohort --study-definition study_definition
    outputs:
      highly_sensitive:
        cohort: output/input.csv

  markdown_doc:
    run: r:latest -e 'rmarkdown::render("analysis/markdown_report.Rmd", output_dir = "output")'
    needs: [generate_study_population]
    outputs:
      moderately_sensitive:
        report: output/markdown_report.html
        
  generate_report:
    run: cohort-report:v3.0.0 output/input.csv
    needs: [generate_study_population]
    config:
      variable_types:
          last_systolic_bp_date: date
          last_ambulatory_systolic_bp_date: date
          last_ambulatory_systolic_bp_date_narrow: date
          age: float
          sex: categorical
          CKD_code: binary
          CVD_code: binary
          T1D_code: binary
          T2D_code: binary
          Overall_diab_code: binary
          msoa_geography: categorical
          stp_geography: categorical
          last_systolic_bp_measure: float
          last_ambulatory_systolic_bp_measure: float
          last_ambulatory_systolic_bp_measure_narrow: float
      output_path: output/cohort_reports_outputs
    outputs:
      moderately_sensitive:
        reports: output/cohort_reports_outputs/descriptives_input.html
        reports_charts: output/cohort_reports_outputs/*.png

Timeline

  • Created:

  • Finished:

  • Runtime:

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

Job information

Status
Failed
Backend
TPP
Workspace
nice-audit-bp
Requested by
Robert Willans
Branch
main
Force run dependencies
No
Git commit hash
774f73a
Requested actions
  • generate_report

Code comparison

Compare the code used in this Job Request