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Job request: 24637

Organisation:
Bennett Institute
Workspace:
death-report
ID:
b7vvyqqegbdq3x7b
View repo View project.yaml

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

By cross-referencing the list of jobs with the pipeline section below, you can infer what security level various outputs were written to. Researchers can never directly view outputs marked as highly_sensitive ; 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

  • Action:
    dataset_death_date_diff
    Status:
    Status: Failed
    Job identifier:
    3apfrwj7odo2vul7
    Error:
    cancelled_by_user: Cancelled by user
  • Action:
    measures_by_practice
    Status:
    Status: Failed
    Job identifier:
    xbovomxyju4yqhm4
    Error:
    cancelled_by_user: Cancelled by user
  • Action:
    measures_overall
    Status:
    Status: Failed
    Job identifier:
    pmeommrntwsikupe
    Error:
    cancelled_by_user: Cancelled by user
  • Action:
    summary_stat
    Status:
    Status: Failed
    Job identifier:
    gev6wjywy75vy3yq
    Error:
    cancelled_by_user: Cancelled by user
  • Action:
    table_DoD
    Status:
    Status: Failed
    Job identifier:
    7eodhvsg3cyye6m3
    Error:
    cancelled_by_user: Cancelled by user
  • Action:
    table_measure_rate
    Status:
    Status: Failed
    Job identifier:
    45dcze56dht4nhe4
    Error:
    cancelled_by_user: Cancelled by user

Pipeline

Show project.yaml 
version: '4.0'

actions:
#Dataset for diff time
  dataset_death_date_diff:
    run: ehrql:v1 generate-dataset analysis/dataset_definition.py --output output/dataset_death_date_diff.csv.gz
    outputs:
      highly_sensitive:
        dataset: output/dataset_death_date_diff.csv.gz
  
  summary_stat:
    run: r:v2 analysis/summary_stats.R
      --output output/DoD/summary_stats_DoD.csv 
    needs: [dataset_death_date_diff]
    outputs:
      moderately_sensitive:
        continuous: output/DoD/summary_stats_DoD.csv
        categorical: output/DoD/table_freq_DoD.csv

  table_DoD:
    run: r:v2 analysis/Table_DoD.R
      --output output/report/*.csv 
    needs: [dataset_death_date_diff]
    outputs:
      moderately_sensitive:
        categorical1: output/report/collate_death_source_table.csv
        categorical2: output/report/collate_DoD_diff_table.csv




# Measures
  measures_overall:
    run: ehrql:v1 generate-measures analysis/measure_def.py 
      --output output/measures/measures_overall.csv
    outputs:
      moderately_sensitive:
        measure_csv: output/measures/measures_overall.csv
  
  table_measure_rate:
    run: r:v2 analysis/Table_measure_rate.R
      --output output/report/*.csv 
    needs: [measures_overall]
    outputs:
      moderately_sensitive:
        categorical: output/report/collate_measures_rate_table.csv

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

Timeline

  • Created:

  • Finished:

  • Runtime:

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

Job information

Status
Failed
Backend
TPP
Workspace
death-report
Requested by
Martina Pesce
Branch
main
Force run dependencies
Yes
Git commit hash
07f3bee
Requested actions
  • dataset_death_date_diff
  • summary_stat
  • table_DoD
  • measures_overall
  • table_measure_rate
  • measures_by_practice

Code comparison

Compare the code used in this Job Request