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Job request: 391

Organisation:
NHSX
Workspace:
vaccine-eligibility
ID:
erpfteepaguzb22d
View repo View project.yaml

This page shows the technical details of what happened when the authorised researcher Jonny Pearson 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

  • Action:
    run_notebook
    Status:
    Failed
    Job identifier:
    arczoihjtdm2df6h
    Error:
    ProjectYAMLError: DuplicateKeyError while constructing a mapping in "project.yaml", line 19, column 9: notebook: output/Study_Analysis.html ^ (line: 19) found duplicate key "csv" with value "output/PriorityCounts_WithWorkforce.csv" (original value: "output/PriorityCounts_NoWorkforce.csv") in "project.yaml", line 21, column 9: csv: output/PriorityCounts_WithW ... ^ (line: 21)

Pipeline

Show project.yaml 
version: '3.0'

expectations:
  population_size: 10000

actions:

  generate_cohort:
    run: cohortextractor:latest generate_cohort --study-definition study_definition
    outputs:
      highly_sensitive:
        cohort: output/input.csv

  run_notebook:
    run: jupyter:latest jupyter nbconvert /workspace/analysis/Study_Analysis.ipynb --execute --to html --output-dir=/workspace/output --ExecutePreprocessor.timeout=86400
    needs: [generate_cohort]
    outputs:
      moderately_sensitive:
        notebook: output/Study_Analysis.html
        csv: output/PriorityCounts_NoWorkforce.csv
        csv: output/PriorityCounts_WithWorkforce.csv
        csv: output/clinExtrVuln_propensity.csv
        csv: output/atRisk_propenstiy.csv
        png: output/waterfall_age.png
        png: output/waterfall_wf.png

Job statistics

Status Count Percentage
Pending 0 0%
Running 0 0%
Succeeded 0 0%
Failed 1 100%

1 / 1 (100%) complete

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime:

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

Job request

Status
Failed
Backend
TPP
Workspace
vaccine-eligibility
Requested by
Jonny Pearson
Branch
will-run
Force run dependencies
No
Git commit hash
f684c42
Requested actions
  • run_notebook

Code comparison

Compare the code used in this job request