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Job request: 25623

Organisation:
Bennett Institute
Workspace:
tpp-counts-by-year
ID:
kcwsxgyaclkbbrda
View repo View project.yaml

This page shows the technical details of what happened when the authorised researcher Andrea Schaffer 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:
    measures_patients
    Status:
    Status: Succeeded
    Job identifier:
    wr2ctx77drej6oja
  • Action:
    measures_practices
    Status:
    Status: Failed
    Job identifier:
    pj4vxjxvwwq25xkd
    Error:
    nonzero_exit: Job exited with an error: A transient database error occurred, your job may run if you try it again, if it keeps failing then contact tech support
  • Action:
    processing
    Status:
    Status: Failed
    Job identifier:
    csxrjrqfrmslym72
    Error:
    dependency_failed: Not starting as dependency failed
  • Action:
    run_pre_filtering_only
    Status:
    Status: Failed
    Job identifier:
    hnwujw3wzyrsdhxa
    Error:
    dependency_failed: Not starting as dependency failed

Pipeline

Show project.yaml 
version: '4.0'

actions:
  measures_patients:
    run: ehrql:v1 generate-measures analysis/measures_patients.py 
      --output output/measures/measures_patients.csv
    outputs:
      moderately_sensitive:
        measure_csv: output/measures/measures_patients.csv

  measures_practices:
    run: ehrql:v1 generate-measures analysis/measures_practices.py 
      --output output/measures/measures_practices.csv.gz
    outputs:
      highly_sensitive:
        measure_csv: output/measures/measures_practices.csv.gz

  processing:
    run: r:latest analysis/0_tpp_counts.R
    needs: [measures_patients, measures_practices]
    outputs:
      moderately_sensitive:
        csv: output/processed/tpp_counts_by_year.csv
        
  run_pre_filtering_only:
    run: r:latest analysis/1_prefiltering.R
    needs: [processing]
    outputs:
      moderately_sensitive:
        csv: output/prefiltering/tpp_counts_pre_filtering.csv

  # run_post_filtering_only:
  #   run: r:latest analysis/2_postfiltering.R
  #   needs: [processing]
  #   outputs:
  #     moderately_sensitive:
  #       csv: output/postfiltering/tpp_counts_post_filtering.csv

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 01:21:55

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

Job request

Status
Failed
Backend
TPP
Workspace
tpp-counts-by-year
Requested by
Andrea Schaffer
Branch
main
Force run dependencies
No
Git commit hash
41a1451
Requested actions
  • measures_patients
  • measures_practices
  • processing
  • run_pre_filtering_only

Code comparison

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  • No previous job request available for comparison