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Job request: 3947

Organisation:
Bennett Institute
Workspace:
pulse_oximetry_sro
ID:
cgpvd2lmzm244nik
View repo View project.yaml

This page shows the technical details of what happened when the authorised researcher Colm Andrews 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

Pipeline

Show project.yaml 
version: '3.0'

expectations:
  population_size: 10000

actions:

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

  count_by_strata:
    run: python:latest python analysis/COPD005_count.py
    needs: [generate_cohort]
    outputs:
      moderately_sensitive:
        historic_code_table: output/all_historic_pulse_oximetry_codes.csv
        historic_code_table_cv3: output/all_historic_pulse_oximetry_codes_ctv3.csv

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 00:35:48

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

Job request

Status
Succeeded
Backend
TPP
Workspace
pulse_oximetry_sro
Requested by
Colm Andrews
Branch
master
Force run dependencies
Yes
Git commit hash
669c917
Requested actions
  • run_all

Code comparison

Compare the code used in this job request