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Job request: 1371

Organisation:
Bennett Institute
Workspace:
long-covid-ncs
ID:
crinyug263et3pjj
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_cohort
    Status:
    Status: Failed
    Job identifier:
    adxavnnam4kdafnq
    Error:
    nonzero_exit: Job exited with an error code
  • Action:
    count_by_strata
    Status:
    Status: Failed
    Job identifier:
    nuqrxgz7xwsecada
    Error:
    dependency_failed: Not starting as dependency failed

Pipeline

Show project.yaml 
version: '3.0'

expectations:
  population_size: 2000

actions:

  generate_cohort:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_cohort
    outputs:
      highly_sensitive:
        cohort: output/input_cohort.csv

  count_by_strata:
    run: python:latest python analysis/all_time_counts.py
    needs: [generate_cohort]
    outputs:
      moderately_sensitive:
        table: output/counts_table.csv
        practice_distribution: output/practice_distribution.csv
        per_week: output/code_use_per_week.csv
        code_table: output/all_long_covid_codes.csv
        practice_summ: output/practice_summ.txt

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 00:00:08

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

Job request

Status
Failed
Backend
TPP
Workspace
long-covid-ncs
Requested by
Alex Walker
Branch
NCS-historical-health
Force run dependencies
Yes
Git commit hash
f7b2cfd
Requested actions
  • run_all

Code comparison

Compare the code used in this job request