Job request: 21199

Organisation:: The London School of Hygiene & Tropical Medicine
Workspace:: healthcare_needs_chronic_kidney_disease
ID:: jn2wi65a55jxka2n
This page shows the technical details of what happened when authorised researcher Viyaasan Mahalingasivam 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:

age_ckd3

Status:

Status: Succeeded

Job identifier:

pjvawx2iyokizbek
Action:

age_ckd4

Status:

Status: Succeeded

Job identifier:

3wcyxw6tlcwrnq7p
Action:

age_dialysis

Status:

Status: Succeeded

Job identifier:

ed5xzmxyrx52ilbv
Action:

age_transplant

Status:

Status: Succeeded

Job identifier:

fabc6ic6qeq6kcwl
Pipeline

Show project.yaml
version: "3.0"

expectations:
  population_size: 50000

actions:

  2017:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2017
    outputs:
      highly_sensitive:
        cohort: output/input_2017.csv

  2017_ckd:
    run: stata-mp:latest analysis/ckd.do 2017
    needs: [2017]
    outputs:
      highly_sensitive:
        ckd: output/2017_ckd.csv
        nockd: output/2017_nockd.csv
      moderately_sensitive:
        log: logs/2017_ckd.log
  
  2017_ckd_complete:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2017_ckd_complete
    needs: [2017, 2017_ckd]
    outputs:
      highly_sensitive:
        cohort: output/input_2017_ckd_complete.csv

  2017_clean_ckd_complete:
    run: stata-mp:latest analysis/ckd_complete.do 2017
    needs: [2017, 2017_ckd, 2017_ckd_complete, costs_2017]
    outputs:
      highly_sensitive:
        analysis_dataset: output/2017_ckd_complete.dta
      moderately_sensitive:
        log: logs/2017_ckd_complete.log

  2018:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2018
    outputs:
      highly_sensitive:
        cohort: output/input_2018.csv

  2018_ckd:
    run: stata-mp:latest analysis/ckd.do 2018
    needs: [2018]
    outputs:
      highly_sensitive:
        ckd: output/2018_ckd.csv
        nockd: output/2018_nockd.csv
      moderately_sensitive:
        log: logs/2018_ckd.log
  
  2018_ckd_complete:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2018_ckd_complete
    needs: [2018, 2018_ckd]
    outputs:
      highly_sensitive:
        cohort: output/input_2018_ckd_complete.csv

  2018_clean_ckd_complete:
    run: stata-mp:latest analysis/ckd_complete.do 2018
    needs: [2018, 2018_ckd, 2018_ckd_complete, costs_2018]
    outputs:
      highly_sensitive:
        analysis_dataset: output/2018_ckd_complete.dta
      moderately_sensitive:
        log: logs/2018_ckd_complete.log

  2019:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2019
    outputs:
      highly_sensitive:
        cohort: output/input_2019.csv

  2019_ckd:
    run: stata-mp:latest analysis/ckd.do 2019
    needs: [2019]
    outputs:
      highly_sensitive:
        ckd: output/2019_ckd.csv
        nockd: output/2019_nockd.csv
      moderately_sensitive:
        log: logs/2019_ckd.log
  
  2019_ckd_complete:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2019_ckd_complete
    needs: [2019, 2019_ckd]
    outputs:
      highly_sensitive:
        cohort: output/input_2019_ckd_complete.csv

  2019_clean_ckd_complete:
    run: stata-mp:latest analysis/ckd_complete.do 2019
    needs: [2019, 2019_ckd, 2019_ckd_complete, costs_2019]
    outputs:
      highly_sensitive:
        analysis_dataset: output/2019_ckd_complete.dta
      moderately_sensitive:
        log: logs/2019_ckd_complete.log

  2020:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2020
    outputs:
      highly_sensitive:
        cohort: output/input_2020.csv

  2020_ckd:
    run: stata-mp:latest analysis/ckd.do 2020
    needs: [2020]
    outputs:
      highly_sensitive:
        ckd: output/2020_ckd.csv
        nockd: output/2020_nockd.csv
      moderately_sensitive:
        log: logs/2020_ckd.log
  
  2020_ckd_complete:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2020_ckd_complete
    needs: [2020, 2020_ckd]
    outputs:
      highly_sensitive:
        cohort: output/input_2020_ckd_complete.csv

  2020_clean_ckd_complete:
    run: stata-mp:latest analysis/ckd_complete.do 2020
    needs: [2020, 2020_ckd, 2020_ckd_complete, costs_2020]
    outputs:
      highly_sensitive:
        analysis_dataset: output/2020_ckd_complete.dta
      moderately_sensitive:
        log: logs/2020_ckd_complete.log

  2021:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2021
    outputs:
      highly_sensitive:
        cohort: output/input_2021.csv

  2021_ckd:
    run: stata-mp:latest analysis/ckd.do 2021
    needs: [2021]
    outputs:
      highly_sensitive:
        ckd: output/2021_ckd.csv
        nockd: output/2021_nockd.csv
      moderately_sensitive:
        log: logs/2021_ckd.log
  
  2021_ckd_complete:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2021_ckd_complete
    needs: [2021, 2021_ckd]
    outputs:
      highly_sensitive:
        cohort: output/input_2021_ckd_complete.csv

  2021_clean_ckd_complete:
    run: stata-mp:latest analysis/ckd_complete.do 2021
    needs: [2021, 2021_ckd, 2021_ckd_complete, costs_2021]
    outputs:
      highly_sensitive:
        analysis_dataset: output/2021_ckd_complete.dta
      moderately_sensitive:
        log: logs/2021_ckd_complete.log

  2022:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2022
    outputs:
      highly_sensitive:
        cohort: output/input_2022.csv

  2022_ckd:
    run: stata-mp:latest analysis/ckd.do 2022
    needs: [2022]
    outputs:
      highly_sensitive:
        ckd: output/2022_ckd.csv
        nockd: output/2022_nockd.csv
      moderately_sensitive:
        log: logs/2022_ckd.log
  
  2022_ckd_complete:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2022_ckd_complete
    needs: [2022, 2022_ckd]
    outputs:
      highly_sensitive:
        cohort: output/input_2022_ckd_complete.csv

  2022_clean_ckd_complete:
    run: stata-mp:latest analysis/ckd_complete.do 2022
    needs: [2022, 2022_ckd, 2022_ckd_complete, costs_2022]
    outputs:
      highly_sensitive:
        analysis_dataset: output/2022_ckd_complete.dta
      moderately_sensitive:
        log: logs/2022_ckd_complete.log

  2023:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2023
    outputs:
      highly_sensitive:
        cohort: output/input_2023.csv

  2023_ckd:
    run: stata-mp:latest analysis/ckd.do 2023
    needs: [2023]
    outputs:
      highly_sensitive:
        ckd: output/2023_ckd.csv
        nockd: output/2023_nockd.csv
      moderately_sensitive:
        log: logs/2023_ckd.log
  
  2023_ckd_complete:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2023_ckd_complete
    needs: [2023, 2023_ckd]
    outputs:
      highly_sensitive:
        cohort: output/input_2023_ckd_complete.csv

  2023_clean_ckd_complete:
    run: stata-mp:latest analysis/ckd_complete.do 2023
    needs: [2023, 2023_ckd, 2023_ckd_complete]
    outputs:
      highly_sensitive:
        analysis_dataset: output/2023_ckd_complete.dta
      moderately_sensitive:
        log: logs/2023_ckd_complete.log

  ckd_progression:
    run: stata-mp:latest analysis/ckd_progression.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete, 2017_clean_nockd_complete, 2018_clean_nockd_complete, 2019_clean_nockd_complete, 2020_clean_nockd_complete, 2021_clean_nockd_complete, 2022_clean_nockd_complete]
    outputs:
      moderately_sensitive:
        log: logs/ckd_progression.log
        output: output/ckd_progression.csv

  healthcare_use_overall:
    run: stata-mp:latest analysis/healthcare_use_overall.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/healthcare_use_overall.log
        output: output/healthcare_use_overall.csv

  healthcare_use_albuminuria:
    run: stata-mp:latest analysis/healthcare_use_albuminuria.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/healthcare_use_albuminuria.log
        output: output/healthcare_use_albuminuria.csv

  healthcare_use_ckd3:
    run: stata-mp:latest analysis/healthcare_use_ckd3.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/healthcare_use_ckd3.log
        output: output/healthcare_use_ckd3.csv

  healthcare_use_ckd4:
    run: stata-mp:latest analysis/healthcare_use_ckd4.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/healthcare_use_ckd4.log
        output: output/healthcare_use_ckd4.csv

  healthcare_use_dialysis:
    run: stata-mp:latest analysis/healthcare_use_dialysis.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/healthcare_use_dialysis.log
        output: output/healthcare_use_dialysis.csv

  healthcare_use_transplant:
    run: stata-mp:latest analysis/healthcare_use_transplant.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/healthcare_use_transplant.log
        output: output/healthcare_use_transplant.csv

  absolute_healthcare_use_overall:
    run: stata-mp:latest analysis/absolute_healthcare_use_overall.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/absolute_healthcare_use_overall.log
        output: output/absolute_healthcare_use_overall.csv

  absolute_healthcare_use_albuminuria:
    run: stata-mp:latest analysis/absolute_healthcare_use_albuminuria.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/absolute_healthcare_use_albuminuria.log
        output: output/absolute_healthcare_use_albuminuria.csv

  absolute_healthcare_use_ckd3:
    run: stata-mp:latest analysis/absolute_healthcare_use_ckd3.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/absolute_healthcare_use_ckd3.log
        output: output/absolute_healthcare_use_ckd3.csv

  absolute_healthcare_use_ckd4:
    run: stata-mp:latest analysis/absolute_healthcare_use_ckd4.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/absolute_healthcare_use_ckd4.log
        output: output/absolute_healthcare_use_ckd4.csv

  absolute_healthcare_use_dialysis:
    run: stata-mp:latest analysis/absolute_healthcare_use_dialysis.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/absolute_healthcare_use_dialysis.log
        output: output/absolute_healthcare_use_dialysis.csv

  absolute_healthcare_use_transplant:
    run: stata-mp:latest analysis/absolute_healthcare_use_transplant.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/absolute_healthcare_use_transplant.log
        output: output/absolute_healthcare_use_transplant.csv

  relative_healthcare_use_overall:
    run: stata-mp:latest analysis/relative_healthcare_use_overall.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/relative_healthcare_use_overall.log
        output: output/relative_healthcare_use_overall.csv

  relative_healthcare_use_albuminuria:
    run: stata-mp:latest analysis/relative_healthcare_use_albuminuria.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/relative_healthcare_use_albuminuria.log
        output: output/relative_healthcare_use_albuminuria.csv

  relative_healthcare_use_ckd3:
    run: stata-mp:latest analysis/relative_healthcare_use_ckd3.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/relative_healthcare_use_ckd3.log
        output: output/relative_healthcare_use_ckd3.csv

  relative_healthcare_use_ckd4:
    run: stata-mp:latest analysis/relative_healthcare_use_ckd4.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/relative_healthcare_use_ckd4.log
        output: output/relative_healthcare_use_ckd4.csv

  relative_healthcare_use_dialysis:
    run: stata-mp:latest analysis/relative_healthcare_use_dialysis.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/relative_healthcare_use_dialysis.log
        output: output/relative_healthcare_use_dialysis.csv

  relative_healthcare_use_transplant:
    run: stata-mp:latest analysis/relative_healthcare_use_transplant.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/relative_healthcare_use_transplant.log
        output: output/relative_healthcare_use_transplant.csv

  costs_2017:
    run: >
      databuilder:v0 
        generate-dataset analysis/costs_2017.py --output output/costs_2017.csv
    outputs:
      highly_sensitive:
        costs_2017: output/costs_2017.csv 

  costs_2018:
    run: >
      databuilder:v0 
        generate-dataset analysis/costs_2018.py --output output/costs_2018.csv
    outputs:
      highly_sensitive:
        costs_2018: output/costs_2018.csv

  costs_2019:
    run: >
      databuilder:v0 
        generate-dataset analysis/costs_2019.py --output output/costs_2019.csv
    outputs:
      highly_sensitive:
        costs_2019: output/costs_2019.csv 

  costs_2020:
    run: >
      databuilder:v0 
        generate-dataset analysis/costs_2020.py --output output/costs_2020.csv
    outputs:
      highly_sensitive:
        costs_2020: output/costs_2020.csv

  costs_2021:
    run: >
      databuilder:v0 
        generate-dataset analysis/costs_2021.py --output output/costs_2021.csv
    outputs:
      highly_sensitive:
        costs_2021: output/costs_2021.csv

  costs_2022:
    run: >
      databuilder:v0 
        generate-dataset analysis/costs_2022.py --output output/costs_2022.csv
    outputs:
      highly_sensitive:
        costs_2022: output/costs_2022.csv

  costs_overall:
    run: stata-mp:latest analysis/costs_overall.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/costs_overall.log
        output: output/costs_overall.csv

  costs_albuminuria:
    run: stata-mp:latest analysis/costs_albuminuria.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/costs_albuminuria.log
        output: output/costs_albuminuria.csv

  costs_ckd3:
    run: stata-mp:latest analysis/costs_ckd3.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/costs_ckd3.log
        output: output/costs_ckd3.csv

  costs_ckd4:
    run: stata-mp:latest analysis/costs_ckd4.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/costs_ckd4.log
        output: output/costs_ckd4.csv

  costs_dialysis:
    run: stata-mp:latest analysis/costs_dialysis.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/costs_dialysis.log
        output: output/costs_dialysis.csv

  costs_transplant:
    run: stata-mp:latest analysis/costs_transplant.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/costs_transplant.log
        output: output/costs_transplant.csv

  relative_costs_overall:
    run: stata-mp:latest analysis/relative_costs_overall.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/relative_costs_overall.log
        output: output/relative_costs_overall.csv

  relative_costs_albuminuria:
    run: stata-mp:latest analysis/relative_costs_albuminuria.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/relative_costs_albuminuria.log
        output: output/relative_costs_albuminuria.csv

  relative_costs_ckd3:
    run: stata-mp:latest analysis/relative_costs_ckd3.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/relative_costs_ckd3.log
        output: output/relative_costs_ckd3.csv

  relative_costs_ckd4:
    run: stata-mp:latest analysis/relative_costs_ckd4.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/relative_costs_ckd4.log
        output: output/relative_costs_ckd4.csv

  relative_costs_dialysis:
    run: stata-mp:latest analysis/relative_costs_dialysis.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/relative_costs_dialysis.log
        output: output/relative_costs_dialysis.csv

  relative_costs_transplant:
    run: stata-mp:latest analysis/relative_costs_transplant.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/relative_costs_transplant.log
        output: output/relative_costs_transplant.csv

  unit_costs_overall:
    run: stata-mp:latest analysis/unit_costs_overall.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete]
    outputs:
      moderately_sensitive:
        log: logs/unit_costs_overall.log
        output: output/unit_costs_overall.csv

  2017_nockd_complete:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2017_nockd_complete
    needs: [2017, 2017_ckd]
    outputs:
      highly_sensitive:
        cohort: output/input_2017_nockd_complete.csv

  2018_nockd_complete:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2018_nockd_complete
    needs: [2018, 2018_ckd]
    outputs:
      highly_sensitive:
        cohort: output/input_2018_nockd_complete.csv

  2019_nockd_complete:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2019_nockd_complete
    needs: [2019, 2019_ckd]
    outputs:
      highly_sensitive:
        cohort: output/input_2019_nockd_complete.csv

  2020_nockd_complete:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2020_nockd_complete
    needs: [2020, 2020_ckd]
    outputs:
      highly_sensitive:
        cohort: output/input_2020_nockd_complete.csv

  2021_nockd_complete:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2021_nockd_complete
    needs: [2021, 2021_ckd]
    outputs:
      highly_sensitive:
        cohort: output/input_2021_nockd_complete.csv

  2022_nockd_complete:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_2022_nockd_complete
    needs: [2022, 2022_ckd]
    outputs:
      highly_sensitive:
        cohort: output/input_2022_nockd_complete.csv

  2017_clean_nockd_complete:
    run: stata-mp:latest analysis/nockd_complete.do 2017
    needs: [2017, 2017_ckd, 2017_nockd_complete]
    outputs:
      highly_sensitive:
        analysis_dataset: output/2017_nockd_complete.dta
      moderately_sensitive:
        log: logs/2017_nockd_complete.log

  2018_clean_nockd_complete:
    run: stata-mp:latest analysis/nockd_complete.do 2018
    needs: [2018, 2018_ckd, 2018_nockd_complete]
    outputs:
      highly_sensitive:
        analysis_dataset: output/2018_nockd_complete.dta
      moderately_sensitive:
        log: logs/2018_nockd_complete.log

  2019_clean_nockd_complete:
    run: stata-mp:latest analysis/nockd_complete.do 2019
    needs: [2019, 2019_ckd, 2019_nockd_complete]
    outputs:
      highly_sensitive:
        analysis_dataset: output/2019_nockd_complete.dta
      moderately_sensitive:
        log: logs/2019_nockd_complete.log

  2020_clean_nockd_complete:
    run: stata-mp:latest analysis/nockd_complete.do 2020
    needs: [2020, 2020_ckd, 2020_nockd_complete]
    outputs:
      highly_sensitive:
        analysis_dataset: output/2020_nockd_complete.dta
      moderately_sensitive:
        log: logs/2020_nockd_complete.log

  2021_clean_nockd_complete:
    run: stata-mp:latest analysis/nockd_complete.do 2021
    needs: [2021, 2021_ckd, 2021_nockd_complete]
    outputs:
      highly_sensitive:
        analysis_dataset: output/2021_nockd_complete.dta
      moderately_sensitive:
        log: logs/2021_nockd_complete.log

  2022_clean_nockd_complete:
    run: stata-mp:latest analysis/nockd_complete.do 2022
    needs: [2022, 2022_ckd, 2022_nockd_complete]
    outputs:
      highly_sensitive:
        analysis_dataset: output/2022_nockd_complete.dta
      moderately_sensitive:
        log: logs/2022_nockd_complete.log

  age_death:
    run: stata-mp:latest analysis/age_death.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete, 2017_clean_nockd_complete, 2018_clean_nockd_complete, 2019_clean_nockd_complete, 2020_clean_nockd_complete, 2021_clean_nockd_complete, 2022_clean_nockd_complete]
    outputs:
      moderately_sensitive:
        log: logs/age_death.log
        output: output/age_death.csv

  age_death_distribution:
    run: stata-mp:latest analysis/age_death_distribution.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete, 2017_clean_nockd_complete, 2018_clean_nockd_complete, 2019_clean_nockd_complete, 2020_clean_nockd_complete, 2021_clean_nockd_complete, 2022_clean_nockd_complete]
    outputs:
      moderately_sensitive:
        log: logs/age_death_distribution.log
        output: output/age_death_distribution.csv

  age_progression_distribution:
    run: stata-mp:latest analysis/age_progression_distribution.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete, 2017_clean_nockd_complete, 2018_clean_nockd_complete, 2019_clean_nockd_complete, 2020_clean_nockd_complete, 2021_clean_nockd_complete, 2022_clean_nockd_complete]
    outputs:
      moderately_sensitive:
        log: logs/age_progression_distribution.log
        output: output/age_progression_distribution.csv

  age_ckd3:
    run: stata-mp:latest analysis/age_ckd3.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete, 2017_clean_nockd_complete, 2018_clean_nockd_complete, 2019_clean_nockd_complete, 2020_clean_nockd_complete, 2021_clean_nockd_complete, 2022_clean_nockd_complete]
    outputs:
      moderately_sensitive:
        log: logs/age_ckd3.log
        output: output/age_ckd3.csv

  age_ckd4:
    run: stata-mp:latest analysis/age_ckd4.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete, 2017_clean_nockd_complete, 2018_clean_nockd_complete, 2019_clean_nockd_complete, 2020_clean_nockd_complete, 2021_clean_nockd_complete, 2022_clean_nockd_complete]
    outputs:
      moderately_sensitive:
        log: logs/age_ckd4.log
        output: output/age_ckd4.csv

  age_dialysis:
    run: stata-mp:latest analysis/age_dialysis.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete, 2017_clean_nockd_complete, 2018_clean_nockd_complete, 2019_clean_nockd_complete, 2020_clean_nockd_complete, 2021_clean_nockd_complete, 2022_clean_nockd_complete]
    outputs:
      moderately_sensitive:
        log: logs/age_dialysis.log
        output: output/age_dialysis.csv

  age_transplant:
    run: stata-mp:latest analysis/age_transplant.do
    needs: [2017_clean_ckd_complete, 2018_clean_ckd_complete, 2019_clean_ckd_complete, 2020_clean_ckd_complete, 2021_clean_ckd_complete, 2022_clean_ckd_complete, 2017_clean_nockd_complete, 2018_clean_nockd_complete, 2019_clean_nockd_complete, 2020_clean_nockd_complete, 2021_clean_nockd_complete, 2022_clean_nockd_complete]
    outputs:
      moderately_sensitive:
        log: logs/age_transplant.log
        output: output/age_transplant.csv
Timeline

Created: 1 week, 3 days ago 19 Nov 2023 23:40:27 UTC
Started: 1 week, 3 days ago 19 Nov 2023 23:43:33 UTC
Finished: 1 week, 3 days ago 20 Nov 2023 01:29:58 UTC
Runtime: 06:52:06
These timestamps are generated and stored using the UTC timezone on the TPP backend.
Job information

Status: Succeeded
Backend: TPP
Workspace: healthcare_needs_chronic_kidney_disease
Requested by: Viyaasan Mahalingasivam
Branch: main
Force run dependencies: No
Git commit hash: 3562181
Requested actions: age_ckd3

age_ckd4

age_dialysis

age_transplant