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Job request: 510

Organisation:
Workspace:
ethnicity
ID:
5g4kpnrjutshcvfu
View repo View project.yaml

This page shows the technical details of what happened when 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 indicated Requested Actions with the Pipeline section below, you can infer what security level various outputs were written to. Outputs marked as highly_sensitive can never be viewed directly by a researcher; 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:
    generate_cohorts
    Status:
    Status: Succeeded
    Job identifier:
    zvm52ggfc3m2676o
  • Action:
    crmain
    Status:
    Status: Failed
    Job identifier:
    qrt45oqduinvxfuu
  • Action:
    check_region
    Status:
    Status: Failed
    Job identifier:
    qqhtjptfa4nsxycg
  • Action:
    sens_nostp_eth16
    Status:
    Status: Failed
    Job identifier:
    37pzpbunz47ijeak
  • Action:
    sens_nostp_eth5
    Status:
    Status: Failed
    Job identifier:
    444v5tiwr2ls3iil

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_region:
    run: stata-mp:latest analysis/02b_eth_region_check.do
    needs: [crmain]
    outputs:
      moderately_sensitive:
        log: logs/02b_region_check.log
        table: output/table0_region.txt

  sens_nostp_eth16:
    run: stata-mp:latest analysis/07a_eth_sensanalysis_nostp_eth16.do
    needs: [crmain]
    outputs:
      moderately_sensitive:
        log: logs/07a_eth_sensanalysis_nostp_eth16.log
        table: output/sens_nostp_eth16.txt
        estout: output/estout_sens_nostp_eth16.txt
        graph: output/FP_sens_nostp_eth16.txt


  sens_nostp_eth5:
    run: stata-mp:latest analysis/07b_eth_sensanalysis_nostp_eth5.do
    needs: [crmain]
    outputs:
      moderately_sensitive:
        log: logs/07b_eth_sensanalysis_nostp_eth5.log
        table: output/sens_nostp_eth5.txt
        estout: output/estout_sens_nostp_eth5.txt
        graph: output/FP_sens_nostp_eth5.txt

sens_region_eth16:
    run: stata-mp:latest analysis/07c_eth_ruralurban_eteh16.do
    needs: [crmain]
    outputs:
      moderately_sensitive:
        log: logs/07c_eth_sensanalysis_ruralurban_eth5.log
        estout: output/estout_sens_ruralurban_eth5.txt

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 00:05:04

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

Job information

Status
Failed
Backend
TPP
Workspace
ethnicity
Requested by
Rohini Mathur
Branch
add-project-yaml
Force run dependencies
No
Git commit hash
f9c3e7c
Requested actions
  • run_all

Code comparison

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