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Job request: 24317

Organisation:
Bennett Institute
Workspace:
main
ID:
lz2z4djgoqocksad
View repo View project.yaml

This page shows the technical details of what happened when the authorised researcher Alex Walker 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_measures_alt
    Status:
    Status: Failed
    Job identifier:
    cu2jmqjy2u7ebklp
    Error:
    cancelled_by_user: Cancelled by user
  • Action:
    generate_measures_chol
    Status:
    Status: Failed
    Job identifier:
    sgtdge4r6p7zfdno
    Error:
    cancelled_by_user: Cancelled by user
  • Action:
    generate_measures_hba1c
    Status:
    Status: Failed
    Job identifier:
    byhjhz24lnhpwsbr
    Error:
    cancelled_by_user: Cancelled by user
  • Action:
    generate_measures_rbc
    Status:
    Status: Failed
    Job identifier:
    zgu2777lii6i4hsu
    Error:
    cancelled_by_user: Cancelled by user
  • Action:
    generate_measures_sodium
    Status:
    Status: Failed
    Job identifier:
    5y4jcjrfic7xqgev
    Error:
    cancelled_by_user: Cancelled by user

Pipeline

Show project.yaml 
version: "4.0"

actions:
  generate_measures_alt:
    run: >
      ehrql:v1 generate-measures
        analysis/measure_definition.py
        --output output/measures_alt.csv
        --
        --codelist codelists/opensafely-alanine-aminotransferase-alt-tests.csv
    outputs:
      moderately_sensitive:
        measures: output/measures_alt.csv

  generate_measures_chol:
    run: >
      ehrql:v1 generate-measures
        analysis/measure_definition.py
        --output output/measures_chol.csv
        --
        --codelist codelists/opensafely-cholesterol-tests.csv
    outputs:
      moderately_sensitive:
        measures: output/measures_chol.csv

  generate_measures_hba1c:
    run: >
      ehrql:v1 generate-measures
        analysis/measure_definition.py
        --output output/measures_hba1c.csv
        --
        --codelist codelists/opensafely-glycated-haemoglobin-hba1c-tests.csv
    outputs:
      moderately_sensitive:
        measures: output/measures_hba1c.csv

  generate_measures_rbc:
    run: >
      ehrql:v1 generate-measures
        analysis/measure_definition.py
        --output output/measures_rbc.csv
        --
        --codelist codelists/opensafely-red-blood-cell-rbc-tests.csv
    outputs:
      moderately_sensitive:
        measures: output/measures_rbc.csv

  generate_measures_sodium:
    run: >
      ehrql:v1 generate-measures
        analysis/measure_definition.py
        --output output/measures_sodium.csv
        --
        --codelist codelists/opensafely-sodium-tests-numerical-value.csv
    outputs:
      moderately_sensitive:
        measures: output/measures_sodium.csv

  # Runs test to ensure correctness of measures queries
  generate_test_dataset:
    run: >
      ehrql:v1 generate-dataset
        analysis/dataset_definition.py
        --output output/test_dataset.csv
        --test-data-file analysis/test_dataset_definition.py
        --
        --codelist codelists/opensafely-alanine-aminotransferase-alt-tests.csv
    outputs:
      highly_sensitive:
        dataset: output/test_dataset.csv

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 08:28:18

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

Job request

Status
Failed
Backend
TPP
Workspace
main
Requested by
Alex Walker
Branch
main
Force run dependencies
No
Git commit hash
a4e8c40
Requested actions
  • generate_measures_alt
  • generate_measures_chol
  • generate_measures_hba1c
  • generate_measures_rbc
  • generate_measures_sodium

Code comparison

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  • No previous job request available for comparison