generated from opensafely/research-template
/
project.yaml
39 lines (33 loc) · 1.24 KB
/
project.yaml
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version: "3.0"
expectations:
population_size: 10000
actions:
generate_covid_cohort:
run: cohortextractor:latest generate_cohort --study-definition study_definition_covid
outputs:
highly_sensitive:
cohort: output/input_covid.csv
generate_covid_community_cohort:
run: cohortextractor:latest generate_cohort --study-definition study_definition_covid_community
outputs:
highly_sensitive:
cohort: output/input_covid_community.csv
generate_pneumonia_cohort:
run: cohortextractor:latest generate_cohort --study-definition study_definition_pneumonia
outputs:
highly_sensitive:
cohort: output/input_pneumonia.csv
matching_pneumonia:
run: python:latest python analysis/match_running.py "input_pneumonia"
needs: [generate_covid_cohort, generate_pneumonia_cohort]
outputs:
moderately_sensitive:
matching_report: output/matching_report.txt
highly_sensitive:
combined: output/matched_combined.csv
# matching_data_management:
# run: stata-mp:latest analysis/300_cr_data_management_matching.do
# needs: [generate_covid_cohort, generate_pneumonia_cohort]
# outputs:
# highly_sensitive:
# combined3: output/matched_combined_pneumonia.dta