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Job request: 2830

Organisation:
Royal Devon & Exeter NHS Foundation Trust and University of Exeter
Workspace:
sro-gastro
ID:
w2fu755kqy7qnalm
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 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

  • Action:
    qfit_rmarkdown
    Status:
    Status: Failed
    Job identifier:
    c6dgilffekdtkdus

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

  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

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 00:03:27

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

Job information

Status
Failed
Backend
TPP
Workspace
sro-gastro
Requested by
Nick Kennedy
Branch
main
Force run dependencies
No
Git commit hash
92cbd04
Requested actions
  • qfit_rmarkdown

Code comparison

Compare the code used in this Job Request