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Job request: 23770

Organisation:
The London School of Hygiene & Tropical Medicine
Workspace:
covid_collateral_hf_update
ID:
i2k72czrszh56bpr
View repo View project.yaml

This page shows the technical details of what happened when the authorised researcher Emily Herrett 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

Pipeline

Show project.yaml 
version: '3.0'

# Ignore this`expectation` block. It is required but not used, and will be removed in future versions.
expectations:
  population_size: 10000

actions:
  generate_dataset_prepandemic:
    run: ehrql:v1 generate-dataset analysis/dataset_definition_prepandemic.py --output output/dataset_prepandemic.csv
    outputs:
      highly_sensitive:
        dataset: output/dataset_prepandemic.csv

  generate_dataset_pandemic:
    run: ehrql:v1 generate-dataset analysis/dataset_definition_pandemic.py --output output/dataset_pandemic.csv
    outputs:
      highly_sensitive:
        dataset: output/dataset_pandemic.csv

  generate_dataset_postpandemic:
    run: ehrql:v1 generate-dataset analysis/dataset_definition_postpandemic.py --output output/dataset_postpandemic.csv
    outputs:
      highly_sensitive:
        dataset: output/dataset_postpandemic.csv

  # Generate datasets for analysis   001  
  generate_analysis_datasets:
    run: stata-mp:latest analysis/001_cr_define_covariates_cohorts.do
    needs: [generate_dataset_prepandemic, generate_dataset_pandemic, generate_dataset_postpandemic]
    outputs:
      highly_sensitive:
        log1: logs/001_cr_define_covariates_cohorts.log
        data1: output/prepandemic.dta 
        data2: output/pandemic.dta 
        data3: output/postpandemic.dta 

  # Generate table 1  
  generate_table1:
    run: stata-mp:latest analysis/104_cr_table1.do
    needs: [generate_dataset_prepandemic, generate_dataset_pandemic, generate_dataset_postpandemic, generate_analysis_datasets]
    outputs:
      highly_sensitive:
        log1: logs/104_cr_table1.log
        data1: output/tabfig/table1_prepandemic_redacted_rounded.csv 
        data2: output/tabfig/table1_pandemic_redacted_rounded.csv 
        data3: output/tabfig/table1_postpandemic_redacted_rounded.csv

Timeline

  • Created:

  • Started:

  • Finished:

  • Runtime: 05:38:06

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

Job request

Status
Succeeded
Backend
TPP
Workspace
covid_collateral_hf_update
Requested by
Emily Herrett
Branch
main
Force run dependencies
No
Git commit hash
946bcab
Requested actions
  • run_all

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