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Job request: 3165

Organisation:
Bennett Institute
Workspace:
long-covid-emis
ID:
kwg22vcnhbxhzhco
View repo View project.yaml

This page shows the technical details of what happened when the authorised researcher Louis Fisher 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:
    count_by_strata
    Status:
    Status: Failed
    Job identifier:
    h6kf6aejmz6ci3we
    Error:
    nonzero_exit: Job exited with an error code

Pipeline

Show project.yaml 
version: '3.0'

expectations:
  population_size: 2000

actions:

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

  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_long_covid.csv
        per_week_pvf: output/code_use_per_week_post_viral_fatigue.csv
        code_table: output/all_long_covid_codes.csv
        practice_summ: output/practice_summ.txt

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 00:00:31

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

Job request

Status
Failed
Backend
EMIS
Workspace
long-covid-emis
Requested by
Louis Fisher
Branch
EMIS
Force run dependencies
No
Git commit hash
162be77
Requested actions
  • count_by_strata

Code comparison

Compare the code used in this job request