generated from opensafely/research-template
/
project.yaml
46 lines (39 loc) · 1.5 KB
/
project.yaml
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version: '3.0'
expectations:
population_size: 1000
actions:
generate_study_population:
run: cohortextractor:latest generate_cohort --study-definition study_definition --output-format=csv
outputs:
highly_sensitive:
cohort: output/input.csv
generate_denominator_1:
run: cohortextractor:latest generate_cohort --study-definition study_definition_denominator --index-date-range "2015-01-01 to 2019-01-01 by month" --skip-existing --output-dir=output --output-format=feather
outputs:
highly_sensitive:
cohort: output/measures/input*.feather
generate_denominator_2:
run: cohortextractor:latest generate_cohort --study-definition study_definition_denominator --index-date-range "2019-02-01 to 2023-05-01 by month" --skip-existing --output-dir=output --output-format=feather
outputs:
highly_sensitive:
cohort: output/measures/inpu*.feather
generate_measures:
run: cohortextractor:latest generate_measures --study-definition study_definition_denominator --skip-existing --output-dir=output/measures
needs:
[
generate_denominator_1,
generate_denominator_2,
]
outputs:
moderately_sensitive:
measure_csv: output/measures/measure_registered*_rate.csv
describe_data:
run: r:latest analysis/analysis_counts.R
needs:
[
generate_study_population
]
outputs:
moderately_sensitive:
Tab1: output/monthly_count.csv
Tab2: output/demographics.csv