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Job request: 518

Organisation:
Workspace:
eth-2nd-wave-branch
ID:
y3bg7y5kklglbrks
View repo View project.yaml

This page shows the technical details of what happened when the authorised researcher Rohini Mathur 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:
    main_eth5
    Status:
    Status: Failed
    Job identifier:
    cl6uc675auofuv2o
  • Action:
    crmain
    Status:
    Status: Failed
    Job identifier:
    altewwgeg6q52lvt
  • Action:
    check_eth16
    Status:
    Status: Failed
    Job identifier:
    mpbgxgmgia7ejgl4
  • Action:
    check_eth5
    Status:
    Status: Failed
    Job identifier:
    y4acnmf7bjrdyn4p
  • Action:
    check_region
    Status:
    Status: Failed
    Job identifier:
    6qyntjyqiktursni
  • Action:
    table1_eth16
    Status:
    Status: Failed
    Job identifier:
    nf4btjw4oslicudn
  • Action:
    table1_eth5
    Status:
    Status: Failed
    Job identifier:
    qfoj7h74v3ukyzzs
  • Action:
    main_eth16
    Status:
    Status: Failed
    Job identifier:
    6cx5dtkp674mok3d
  • Action:
    generate_cohorts
    Status:
    Status: Succeeded
    Job identifier:
    tmcebdxq5zecgslj

Pipeline

Show project.yaml 
version: "3.0"

expectations:
  population_size: 100000

actions:
  generate_cohorts:
    run: cohortextractor:latest generate_cohort --study-definition study_definition
    outputs:
      highly_sensitive:
        cohort: output/input.csv


  crmain:
    run: stata-mp:latest analysis/01_eth_cr_analysis_dataset.do
    needs: [generate_cohorts]
    outputs:
      highly_sensitive:
        data: output/analysis_dataset.dta
        stsettested: output/analysis_dataset_STSET_tested.dta
        stsetpositiivetest: output/analysis_dataset_STSET_positivetest.dta
        stsethes: output/analysis_dataset_STSET_hes.dta
        stsetonscoviddeath: output/analysis_dataset_STSET_onscoviddeath.dta
        stsetons_noncoviddeath: output/analysis_dataset_STSET_ons_noncoviddeath.dta
        stsetonsdeath: output/analysis_dataset_STSET_onsdeath.dta 
      moderately_sensitive:
        log: logs/01_eth_cr_analysis_dataset.log

  check_eth16:
    run: stata-mp:latest analysis/02a_eth_outcomes_checks_eth16.do
    needs: [crmain]
    outputs:
      moderately_sensitive:
        log: logs/02a_outcomes_checks_eth16.log
        table: output/table0_outcomes_eth16.txt


  check_eth5:
    run: stata-mp:latest analysis/02b_eth_outcomes_checks_eth5.do
    needs: [crmain]
    outputs:
      moderately_sensitive:
        log: logs/02b_outcomes_checks_eth5.log
        table: output/table0_outcomes_eth5.txt

  check_region:
    run: stata-mp:latest analysis/05a_eth_region_check.do
    needs: [crmain]
    outputs:
      moderately_sensitive:
        log: logs/05_region_check.log
        table: output/table3_region.txt

  table1_eth16:
    run: stata-mp:latest analysis/03a_eth_table1_descriptives_eth16_nocarehomes.do
    needs: [crmain]
    outputs:
      moderately_sensitive:
        log: logs/03a_eth_table1_eth16_nocarehomes.log
        table: output/table1_eth16.txt

  table1_eth5:
    run: stata-mp:latest analysis/03b_eth_table1_descriptives_eth5_nocarehomes.do
    needs: [crmain]
    outputs:
      moderately_sensitive:
        log: logs/03b_eth_table1_eth5_nocarehomes.log
        table: output/table1_eth5.txt

  main_eth16:
    run: stata-mp:latest analysis/04a_eth_an_multivariable_eth16_nocarehomes.do
    needs: [crmain]
    outputs:
      moderately_sensitive:
        log: logs/04a_eth_an_multivariable_eth16.log
        table: output/table2_eth16.txt
        estout: output/estout_table2_eth16.txt
        graph: output/FP_multivariable_eth16.txt

  main_eth5:
    run: stata-mp:latest analysis/04b_eth_an_multivariable_eth5_nocarehomes.do
    needs: [crmain]
    outputs:
      moderately_sensitive:
        log: logs/04b_eth_an_multivariable_eth5.log
        table: output/table2_eth5.txt
        estout: output/estout_table2_eth5.txt
        graph: output/FP_multivariable_eth5.txt

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 00:00:41

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

Job information

Status
Failed
Backend
TPP
Workspace
eth-2nd-wave-branch
Requested by
Rohini Mathur
Branch
remove-ICU-outcome
Force run dependencies
No
Git commit hash
338d2a1
Requested actions
  • crmain
  • check_eth16
  • check_eth5
  • check_region
  • table1_eth16
  • table1_eth5
  • main_eth16
  • main_eth5

Code comparison

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