generated from opensafely/research-template
/
project.yaml
234 lines (202 loc) · 6.75 KB
/
project.yaml
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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:
analysis_dataset: output/2017_ckd.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]
outputs:
highly_sensitive:
analysis_dataset: output/2017_ckd_complete.dta
moderately_sensitive:
log: logs/2017_ckd_complete.log
2017_outcomes:
run: stata-mp:latest analysis/outcomes.do 2017
needs: [2017, 2017_ckd, 2017_ckd_complete, 2017_clean_ckd_complete]
outputs:
moderately_sensitive:
log: logs/2017_outcomes.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:
analysis_dataset: output/2018_ckd.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]
outputs:
highly_sensitive:
analysis_dataset: output/2018_ckd_complete.dta
moderately_sensitive:
log: logs/2018_ckd_complete.log
2018_outcomes:
run: stata-mp:latest analysis/outcomes.do 2018
needs: [2018, 2018_ckd, 2018_ckd_complete, 2018_clean_ckd_complete]
outputs:
moderately_sensitive:
log: logs/2018_outcomes.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:
analysis_dataset: output/2019_ckd.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]
outputs:
highly_sensitive:
analysis_dataset: output/2019_ckd_complete.dta
moderately_sensitive:
log: logs/2019_ckd_complete.log
2019_outcomes:
run: stata-mp:latest analysis/outcomes.do 2019
needs: [2019, 2019_ckd, 2019_ckd_complete, 2019_clean_ckd_complete]
outputs:
moderately_sensitive:
log: logs/2019_outcomes.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:
analysis_dataset: output/2020_ckd.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]
outputs:
highly_sensitive:
analysis_dataset: output/2020_ckd_complete.dta
moderately_sensitive:
log: logs/2020_ckd_complete.log
2020_outcomes:
run: stata-mp:latest analysis/outcomes.do 2020
needs: [2020, 2020_ckd, 2020_ckd_complete, 2020_clean_ckd_complete]
outputs:
moderately_sensitive:
log: logs/2020_outcomes.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:
analysis_dataset: output/2021_ckd.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]
outputs:
highly_sensitive:
analysis_dataset: output/2021_ckd_complete.dta
moderately_sensitive:
log: logs/2021_ckd_complete.log
2021_outcomes:
run: stata-mp:latest analysis/outcomes.do 2021
needs: [2021, 2021_ckd, 2021_ckd_complete, 2021_clean_ckd_complete]
outputs:
moderately_sensitive:
log: logs/2021_outcomes.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:
analysis_dataset: output/2022_ckd.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]
outputs:
highly_sensitive:
analysis_dataset: output/2022_ckd_complete.dta
moderately_sensitive:
log: logs/2022_ckd_complete.log
2022_outcomes:
run: stata-mp:latest analysis/outcomes.do 2022
needs: [2022, 2022_ckd, 2022_ckd_complete, 2022_clean_ckd_complete]
outputs:
moderately_sensitive:
log: logs/2022_outcomes.log