Job request: 3669

View Repo View project.yaml

This page shows the technical details of what happened when authorised researcher Alex Walker requested one or more actions to be run against real patient data in the Long COVID-19 project, within a secure environment.

By cross-referencing the indicated Requested Actions with the Pipeline section below, you can infer what security level various outputs were written to. Outputs marked as highly_sensitive can never be viewed directly by a researcher; they can only request that code runs against them. Outputs marked as moderately_sensitive can be viewed by an approved researcher by logging into a highly secure environment. Only outputs marked as moderately_sensitive can be requested for release to the public, via a controlled output review service.

Jobs

ID Status Action
q4wu5rs4q76mizfp succeeded generate_cohort
jjo5rk3jdymyarof succeeded count_by_strata

Pipeline

Show Hide 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

State

State is inferred from the related Jobs.

Status: Succeeded

Timings

Timings set to UTC timezone.

  • Created:
  • Started:
  • Finished:
  • Runtime: 01:47:26

Config

  • Backend:
    EMIS
  • Workspace:
    long-covid-emis
  • Branch:
    EMIS
  • Creator:
    alexwalkercebm
  • Force run dependencies:
    False
  • Git Commit Hash:
    3439252
  • Requested actions:
    • generate_cohort
    • count_by_strata