Job request: 3501

View Repo View project.yaml

This page shows the technical details of what happened when authorised researcher Nick Kennedy requested one or more actions to be run against real patient data in the Service Restoration Observatory 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

ID Status Action
vyxpsoihgfnazxwt succeeded generate_study_population
65mtbl3ybiyhwpt7 failed run_model
j6p5beidzh2gydg2 succeeded qfit_rmarkdown
4gmiciuao2jpby65 succeeded qfit_region_rmarkdown

Pipeline

Show Hide 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

  run_model:
    run: r:latest analysis/model.R
    needs: [generate_study_population]
    outputs:
      moderately_sensitive:
        count_by_stp: output/qfit_by_stp.csv
        qfits_by_stp: output/qfits_by_stp.png
        fobts_by_stp: output/fobts_by_stp.png
        fobts_by_stp_cat: output/fobts_by_stp_cat.png
        fobts_by_stp_cat_fit: output/fobts_by_stp_cat_fit.png
        qfits_by_stp_near_10: output/qfits_by_stp_near_10.png
        qfit_months_by_stp: output/qfit_months_by_stp.png
  
  qfit_rmarkdown:
    run: r:latest -e 'rmarkdown::render("analysis/qfit_analysis.Rmd", output_dir = "output")'
    needs: [generate_study_population]
    outputs:
      moderately_sensitive:
        qfit_html: output/qfit_analysis.html
        
  qfit_region_rmarkdown:
    run: r:latest -e 'rmarkdown::render("analysis/qfit_analysis_region.Rmd", output_dir = "output")'
    needs: [generate_study_population]
    outputs:
      moderately_sensitive:
        qfit_html: output/qfit_analysis_region.html

State

State is inferred from the related Jobs.

Status: Failed

Timings

Timings set to UTC timezone.

  • Created:
  • Started:
  • Finished:
  • Runtime: 01:47:04

Config

  • Backend:
    TPP
  • Workspace:
    sro-gastro
  • Branch:
    main
  • Creator:
    NikNakk
  • Force run dependencies:
    False
  • Git Commit Hash:
    9fb66e1
  • Requested actions:
    • generate_study_population
    • run_model
    • qfit_rmarkdown
    • qfit_region_rmarkdown