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Job request: 25730

Organisation:
Bennett Institute
Workspace:
wp3_respiratory_virus_timeseries
ID:
cz526g7jk74ull6u
View repo View project.yaml

This page shows the technical details of what happened when the authorised researcher Shrinkhala Dawadi 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:
    generate_dataset
    Status:
    Status: Failed
    Job identifier:
    hhgpwzmbliria2o7
    Error:
    nonzero_exit: Job exited with an error: Assurance tests failed; please confirm the tests pass locally

Pipeline

Show project.yaml 
version: '4.0'

actions:
  generate_dataset:
    run: >
      ehrql:v1 generate-dataset analysis/dataset_definition.py
      --test-data-file analysis/test_dataset_definition.py
      --output output/dataset.csv
    outputs:
      highly_sensitive:
        population: output/dataset.csv

  generate_dummy_tables:
    run: >
      ehrql:v1 create-dummy-tables analysis/dataset_definition.py
      dummy_tables
    outputs:
      highly_sensitive:
        dummy_dataset: dummy_tables/*.csv  

  # modify_dummy_tables:
  #   run: r:latest analysis/edit_dummy_tables.R
  #   needs: [generate_dummy_tables]
  #   outputs: 
  #     highly_sensitive: 
  #       dummy_dataset: dummy_tables/*.csv

  generate_test_measures:
    run: >
      ehrql:v1 generate-measures analysis/measure_definition.py
      --dummy-tables dummy_tables
      --output output/test-measures.csv
      --
      --num_weeks 100
    needs: [generate_dummy_tables]  
    outputs: 
      highly_sensitive:
        dataset: output/test-measures.csv      

  generate_measures:
    run: >
      ehrql:v1 generate-measures analysis/measure_definition.py 
      --output output/measures/:csv
      --
      --num_weeks 469
    outputs: 
      highly_sensitive:
        dataset: output/measures/*.csv

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 00:01:45

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

Job request

Status
Failed
Backend
TPP
Workspace
wp3_respiratory_virus_timeseries
Requested by
Shrinkhala Dawadi
Branch
main
Force run dependencies
No
Git commit hash
ee8bb45
Requested actions
  • generate_dataset

Code comparison

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