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Job request: 514

Organisation:
Workspace:
ethnicity-2nd-wave
ID:
ecafel6jw66xzf75
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 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:
    crmain
    Status:
    Status: Failed
    Job identifier:
    kzbxbs4glxkmz4yw
    Error:
    Job exited with an error code
  • Action:
    check_region
    Status:
    Status: Failed
    Job identifier:
    4jljokguxsj6yuyw
    Error:
    Not starting as dependency failed
  • Action:
    table1_eth5
    Status:
    Status: Failed
    Job identifier:
    t72hrdxugvzxjdrx
    Error:
    Not starting as dependency failed
  • Action:
    main_eth16
    Status:
    Status: Failed
    Job identifier:
    hexxy5azndrdcnyc
    Error:
    Not starting as dependency failed
  • Action:
    main_eth5
    Status:
    Status: Failed
    Job identifier:
    lf6wypqzrj6wwu2n
    Error:
    Not starting as dependency failed
  • Action:
    check_eth16
    Status:
    Status: Failed
    Job identifier:
    54zqrmqfoz7gitsf
    Error:
    Not starting as dependency failed
  • Action:
    check_eth5
    Status:
    Status: Failed
    Job identifier:
    435ucsebarhbjgqc
    Error:
    Not starting as dependency failed
  • Action:
    table1_eth16
    Status:
    Status: Failed
    Job identifier:
    eqx7uajxofhqujbc
    Error:
    Not starting as dependency failed

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
        stseticu: output/analysis_dataset_STSET_icu.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: 00:03:56

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

Job request

Status
Failed
Backend
TPP
Workspace
ethnicity-2nd-wave
Requested by
Rohini Mathur
Branch
master
Force run dependencies
No
Git commit hash
590fcfc
Requested actions
  • crmain
  • check_eth16
  • check_eth5
  • check_region
  • table1_eth16
  • table1_eth5
  • main_eth16
  • main_eth5

Code comparison

Compare the code used in this job request