project.yaml

version: '3.0'

expectations:

  population_size: 100000

actions:

  ## # # # # # # # # # # # # # # # # # # # 
  ## DO NOT EDIT project.yaml DIRECTLY 
  ## This file is created by create-project.R 
  ## Edit and run create-project.R to update the project.yaml 
  ## # # # # # # # # # # # # # # # # # # # 
  ##   
  ## # # # # # # # # # # # # # # # # # # # 
  ## Preliminaries 
  ## # # # # # # # # # # # # # # # # # # # 

  design:
    run: r:latest analysis/design.R
    outputs:
      moderately_sensitive:
        lib: lib/design/study-dates.json

  ## # # # # # # # # # # # # # # # # # # # 
  ## Extract and process treated data 
  ## # # # # # # # # # # # # # # # # # # # 

  extract_treated:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_treated
      --output-file output/treated/extract/input_treated.feather
    needs:
    - design
    outputs:
      highly_sensitive:
        extract: output/treated/extract/input_treated.feather

  process_treated:
    run: r:latest analysis/process_data.R treated
    needs:
    - extract_treated
    outputs:
      highly_sensitive:
        eligible: output/treated/eligible/*.rds
        pfizer: output/pfizer/treated/*.rds
        az: output/az/treated/*.rds

  ## # # # # # # # # # # # # # # # # # # # 
  ## Pfizer cohort 
  ## # # # # # # # # # # # # # # # # # # # 
  ## # # # # # # # # # # # # # # # # # # # 
  ## Extract and match 

  extract_controlpotential_pfizer_1:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlpotential
      --output-file output/pfizer/matchround1/extract/input_controlpotential.feather
      --param cohort=pfizer --param matching_round=1 --param index_date=2020-12-08
    needs:
    - design
    outputs:
      highly_sensitive:
        cohort: output/pfizer/matchround1/extract/input_controlpotential.feather

  process_controlpotential_pfizer_1:
    run: r:latest analysis/process_data.R potential pfizer 1
    needs:
    - extract_controlpotential_pfizer_1
    outputs:
      highly_sensitive:
        rds: output/pfizer/matchround1/process/*.rds

  match_potential_pfizer_1:
    run: r:latest analysis/matching/match_potential.R pfizer 1
    needs:
    - process_treated
    - process_controlpotential_pfizer_1
    outputs:
      highly_sensitive:
        rds: output/pfizer/matchround1/potential/*.rds
        csv: output/pfizer/matchround1/potential/*.csv.gz

  extract_controlactual_pfizer_1:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlactual
      --output-file output/pfizer/matchround1/extract/input_controlactual.feather
      --param cohort=pfizer --param matching_round=1
    needs:
    - design
    - match_potential_pfizer_1
    outputs:
      highly_sensitive:
        cohort: output/pfizer/matchround1/extract/input_controlactual.feather

  process_controlactual_pfizer_1:
    run: r:latest analysis/process_data.R actual pfizer 1
    needs:
    - process_treated
    - match_potential_pfizer_1
    - extract_controlpotential_pfizer_1
    - process_controlpotential_pfizer_1
    - extract_controlactual_pfizer_1
    outputs:
      highly_sensitive:
        rds: output/pfizer/matchround1/actual/*.rds
        csv: output/pfizer/matchround1/actual/*.csv.gz

  extract_controlpotential_pfizer_2:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlpotential
      --output-file output/pfizer/matchround2/extract/input_controlpotential.feather
      --param cohort=pfizer --param matching_round=2 --param index_date=2020-12-22
    needs:
    - design
    - process_controlactual_pfizer_1
    outputs:
      highly_sensitive:
        cohort: output/pfizer/matchround2/extract/input_controlpotential.feather

  process_controlpotential_pfizer_2:
    run: r:latest analysis/process_data.R potential pfizer 2
    needs:
    - extract_controlpotential_pfizer_2
    outputs:
      highly_sensitive:
        rds: output/pfizer/matchround2/process/*.rds

  match_potential_pfizer_2:
    run: r:latest analysis/matching/match_potential.R pfizer 2
    needs:
    - process_treated
    - process_controlpotential_pfizer_2
    - process_controlactual_pfizer_1
    outputs:
      highly_sensitive:
        rds: output/pfizer/matchround2/potential/*.rds
        csv: output/pfizer/matchround2/potential/*.csv.gz

  extract_controlactual_pfizer_2:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlactual
      --output-file output/pfizer/matchround2/extract/input_controlactual.feather
      --param cohort=pfizer --param matching_round=2
    needs:
    - design
    - match_potential_pfizer_2
    outputs:
      highly_sensitive:
        cohort: output/pfizer/matchround2/extract/input_controlactual.feather

  process_controlactual_pfizer_2:
    run: r:latest analysis/process_data.R actual pfizer 2
    needs:
    - process_treated
    - match_potential_pfizer_2
    - extract_controlpotential_pfizer_2
    - process_controlpotential_pfizer_2
    - extract_controlactual_pfizer_2
    - process_controlactual_pfizer_1
    outputs:
      highly_sensitive:
        rds: output/pfizer/matchround2/actual/*.rds
        csv: output/pfizer/matchround2/actual/*.csv.gz

  extract_controlpotential_pfizer_3:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlpotential
      --output-file output/pfizer/matchround3/extract/input_controlpotential.feather
      --param cohort=pfizer --param matching_round=3 --param index_date=2021-01-05
    needs:
    - design
    - process_controlactual_pfizer_2
    outputs:
      highly_sensitive:
        cohort: output/pfizer/matchround3/extract/input_controlpotential.feather

  process_controlpotential_pfizer_3:
    run: r:latest analysis/process_data.R potential pfizer 3
    needs:
    - extract_controlpotential_pfizer_3
    outputs:
      highly_sensitive:
        rds: output/pfizer/matchround3/process/*.rds

  match_potential_pfizer_3:
    run: r:latest analysis/matching/match_potential.R pfizer 3
    needs:
    - process_treated
    - process_controlpotential_pfizer_3
    - process_controlactual_pfizer_2
    outputs:
      highly_sensitive:
        rds: output/pfizer/matchround3/potential/*.rds
        csv: output/pfizer/matchround3/potential/*.csv.gz

  extract_controlactual_pfizer_3:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlactual
      --output-file output/pfizer/matchround3/extract/input_controlactual.feather
      --param cohort=pfizer --param matching_round=3
    needs:
    - design
    - match_potential_pfizer_3
    outputs:
      highly_sensitive:
        cohort: output/pfizer/matchround3/extract/input_controlactual.feather

  process_controlactual_pfizer_3:
    run: r:latest analysis/process_data.R actual pfizer 3
    needs:
    - process_treated
    - match_potential_pfizer_3
    - extract_controlpotential_pfizer_3
    - process_controlpotential_pfizer_3
    - extract_controlactual_pfizer_3
    - process_controlactual_pfizer_2
    outputs:
      highly_sensitive:
        rds: output/pfizer/matchround3/actual/*.rds
        csv: output/pfizer/matchround3/actual/*.csv.gz

  extract_controlpotential_pfizer_4:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlpotential
      --output-file output/pfizer/matchround4/extract/input_controlpotential.feather
      --param cohort=pfizer --param matching_round=4 --param index_date=2021-01-19
    needs:
    - design
    - process_controlactual_pfizer_3
    outputs:
      highly_sensitive:
        cohort: output/pfizer/matchround4/extract/input_controlpotential.feather

  process_controlpotential_pfizer_4:
    run: r:latest analysis/process_data.R potential pfizer 4
    needs:
    - extract_controlpotential_pfizer_4
    outputs:
      highly_sensitive:
        rds: output/pfizer/matchround4/process/*.rds

  match_potential_pfizer_4:
    run: r:latest analysis/matching/match_potential.R pfizer 4
    needs:
    - process_treated
    - process_controlpotential_pfizer_4
    - process_controlactual_pfizer_3
    outputs:
      highly_sensitive:
        rds: output/pfizer/matchround4/potential/*.rds
        csv: output/pfizer/matchround4/potential/*.csv.gz

  extract_controlactual_pfizer_4:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlactual
      --output-file output/pfizer/matchround4/extract/input_controlactual.feather
      --param cohort=pfizer --param matching_round=4
    needs:
    - design
    - match_potential_pfizer_4
    outputs:
      highly_sensitive:
        cohort: output/pfizer/matchround4/extract/input_controlactual.feather

  process_controlactual_pfizer_4:
    run: r:latest analysis/process_data.R actual pfizer 4
    needs:
    - process_treated
    - match_potential_pfizer_4
    - extract_controlpotential_pfizer_4
    - process_controlpotential_pfizer_4
    - extract_controlactual_pfizer_4
    - process_controlactual_pfizer_3
    outputs:
      highly_sensitive:
        rds: output/pfizer/matchround4/actual/*.rds
        csv: output/pfizer/matchround4/actual/*.csv.gz

  extract_controlfinal_pfizer:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlfinal
      --output-file output/pfizer/extract/input_controlfinal.feather --param cohort=pfizer
      --param n_matching_rounds=4
    needs:
    - design
    - process_controlactual_pfizer_4
    outputs:
      highly_sensitive:
        extract: output/pfizer/extract/input_controlfinal.feather

  dummydata_controlfinal_pfizer:
    run: r:latest analysis/dummy/dummydata_controlfinal.R pfizer
    needs:
    - process_controlactual_pfizer_1
    - process_controlactual_pfizer_2
    - process_controlactual_pfizer_3
    - process_controlactual_pfizer_4
    outputs:
      highly_sensitive:
        dummydata_controlfinal: output/pfizer/dummydata/dummy_control_final.feather

  process_controlfinal_pfizer:
    run: r:latest analysis/process_data.R final pfizer
    needs:
    - process_controlactual_pfizer_1
    - process_controlactual_pfizer_2
    - process_controlactual_pfizer_3
    - process_controlactual_pfizer_4
    - extract_controlfinal_pfizer
    - process_treated
    - dummydata_controlfinal_pfizer
    outputs:
      highly_sensitive:
        extract: output/pfizer/match/*.rds

  table1_pfizer:
    run: r:latest analysis/matching/table1.R pfizer
    needs:
    - process_controlfinal_pfizer
    outputs:
      moderately_sensitive:
        csv: output/pfizer/table1/*.csv

  ## # # # # # # # # # # # # # # # # # # # 
  ## Model 

  km_pfizer_all_postest:
    run: r:latest analysis/model/km.R pfizer all postest
    needs:
    - process_controlfinal_pfizer
    outputs:
      moderately_sensitive:
        rds: output/pfizer/models/km/all/postest/*.rds
        png: output/pfizer/models/km/all/postest/*.png

  km_pfizer_all_emergency:
    run: r:latest analysis/model/km.R pfizer all emergency
    needs:
    - process_controlfinal_pfizer
    outputs:
      moderately_sensitive:
        rds: output/pfizer/models/km/all/emergency/*.rds
        png: output/pfizer/models/km/all/emergency/*.png

  km_pfizer_all_covidemergency:
    run: r:latest analysis/model/km.R pfizer all covidemergency
    needs:
    - process_controlfinal_pfizer
    outputs:
      moderately_sensitive:
        rds: output/pfizer/models/km/all/covidemergency/*.rds
        png: output/pfizer/models/km/all/covidemergency/*.png

  km_pfizer_all_covidadmitted:
    run: r:latest analysis/model/km.R pfizer all covidadmitted
    needs:
    - process_controlfinal_pfizer
    outputs:
      moderately_sensitive:
        rds: output/pfizer/models/km/all/covidadmitted/*.rds
        png: output/pfizer/models/km/all/covidadmitted/*.png

  km_pfizer_all_covidcritcare:
    run: r:latest analysis/model/km.R pfizer all covidcritcare
    needs:
    - process_controlfinal_pfizer
    outputs:
      moderately_sensitive:
        rds: output/pfizer/models/km/all/covidcritcare/*.rds
        png: output/pfizer/models/km/all/covidcritcare/*.png

  km_pfizer_all_coviddeath:
    run: r:latest analysis/model/km.R pfizer all coviddeath
    needs:
    - process_controlfinal_pfizer
    outputs:
      moderately_sensitive:
        rds: output/pfizer/models/km/all/coviddeath/*.rds
        png: output/pfizer/models/km/all/coviddeath/*.png

  km_pfizer_all_noncoviddeath:
    run: r:latest analysis/model/km.R pfizer all noncoviddeath
    needs:
    - process_controlfinal_pfizer
    outputs:
      moderately_sensitive:
        rds: output/pfizer/models/km/all/noncoviddeath/*.rds
        png: output/pfizer/models/km/all/noncoviddeath/*.png

  km_pfizer_ageband2_postest:
    run: r:latest analysis/model/km.R pfizer ageband2 postest
    needs:
    - process_controlfinal_pfizer
    outputs:
      moderately_sensitive:
        rds: output/pfizer/models/km/ageband2/postest/*.rds
        png: output/pfizer/models/km/ageband2/postest/*.png

  km_pfizer_ageband2_emergency:
    run: r:latest analysis/model/km.R pfizer ageband2 emergency
    needs:
    - process_controlfinal_pfizer
    outputs:
      moderately_sensitive:
        rds: output/pfizer/models/km/ageband2/emergency/*.rds
        png: output/pfizer/models/km/ageband2/emergency/*.png

  km_pfizer_ageband2_covidemergency:
    run: r:latest analysis/model/km.R pfizer ageband2 covidemergency
    needs:
    - process_controlfinal_pfizer
    outputs:
      moderately_sensitive:
        rds: output/pfizer/models/km/ageband2/covidemergency/*.rds
        png: output/pfizer/models/km/ageband2/covidemergency/*.png

  km_pfizer_ageband2_covidadmitted:
    run: r:latest analysis/model/km.R pfizer ageband2 covidadmitted
    needs:
    - process_controlfinal_pfizer
    outputs:
      moderately_sensitive:
        rds: output/pfizer/models/km/ageband2/covidadmitted/*.rds
        png: output/pfizer/models/km/ageband2/covidadmitted/*.png

  km_pfizer_ageband2_covidcritcare:
    run: r:latest analysis/model/km.R pfizer ageband2 covidcritcare
    needs:
    - process_controlfinal_pfizer
    outputs:
      moderately_sensitive:
        rds: output/pfizer/models/km/ageband2/covidcritcare/*.rds
        png: output/pfizer/models/km/ageband2/covidcritcare/*.png

  km_pfizer_ageband2_coviddeath:
    run: r:latest analysis/model/km.R pfizer ageband2 coviddeath
    needs:
    - process_controlfinal_pfizer
    outputs:
      moderately_sensitive:
        rds: output/pfizer/models/km/ageband2/coviddeath/*.rds
        png: output/pfizer/models/km/ageband2/coviddeath/*.png

  km_pfizer_ageband2_noncoviddeath:
    run: r:latest analysis/model/km.R pfizer ageband2 noncoviddeath
    needs:
    - process_controlfinal_pfizer
    outputs:
      moderately_sensitive:
        rds: output/pfizer/models/km/ageband2/noncoviddeath/*.rds
        png: output/pfizer/models/km/ageband2/noncoviddeath/*.png

  ## # # # # # # # # # # # # # # # # # # # 
  ## AZ cohort 
  ## # # # # # # # # # # # # # # # # # # # 
  ## # # # # # # # # # # # # # # # # # # # 
  ## Extract and match 

  extract_controlpotential_az_1:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlpotential
      --output-file output/az/matchround1/extract/input_controlpotential.feather --param
      cohort=az --param matching_round=1 --param index_date=2021-01-04
    needs:
    - design
    outputs:
      highly_sensitive:
        cohort: output/az/matchround1/extract/input_controlpotential.feather

  process_controlpotential_az_1:
    run: r:latest analysis/process_data.R potential az 1
    needs:
    - extract_controlpotential_az_1
    outputs:
      highly_sensitive:
        rds: output/az/matchround1/process/*.rds

  match_potential_az_1:
    run: r:latest analysis/matching/match_potential.R az 1
    needs:
    - process_treated
    - process_controlpotential_az_1
    outputs:
      highly_sensitive:
        rds: output/az/matchround1/potential/*.rds
        csv: output/az/matchround1/potential/*.csv.gz

  extract_controlactual_az_1:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlactual
      --output-file output/az/matchround1/extract/input_controlactual.feather --param
      cohort=az --param matching_round=1
    needs:
    - design
    - match_potential_az_1
    outputs:
      highly_sensitive:
        cohort: output/az/matchround1/extract/input_controlactual.feather

  process_controlactual_az_1:
    run: r:latest analysis/process_data.R actual az 1
    needs:
    - process_treated
    - match_potential_az_1
    - extract_controlpotential_az_1
    - process_controlpotential_az_1
    - extract_controlactual_az_1
    outputs:
      highly_sensitive:
        rds: output/az/matchround1/actual/*.rds
        csv: output/az/matchround1/actual/*.csv.gz

  extract_controlpotential_az_2:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlpotential
      --output-file output/az/matchround2/extract/input_controlpotential.feather --param
      cohort=az --param matching_round=2 --param index_date=2021-01-18
    needs:
    - design
    - process_controlactual_az_1
    outputs:
      highly_sensitive:
        cohort: output/az/matchround2/extract/input_controlpotential.feather

  process_controlpotential_az_2:
    run: r:latest analysis/process_data.R potential az 2
    needs:
    - extract_controlpotential_az_2
    outputs:
      highly_sensitive:
        rds: output/az/matchround2/process/*.rds

  match_potential_az_2:
    run: r:latest analysis/matching/match_potential.R az 2
    needs:
    - process_treated
    - process_controlpotential_az_2
    - process_controlactual_az_1
    outputs:
      highly_sensitive:
        rds: output/az/matchround2/potential/*.rds
        csv: output/az/matchround2/potential/*.csv.gz

  extract_controlactual_az_2:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlactual
      --output-file output/az/matchround2/extract/input_controlactual.feather --param
      cohort=az --param matching_round=2
    needs:
    - design
    - match_potential_az_2
    outputs:
      highly_sensitive:
        cohort: output/az/matchround2/extract/input_controlactual.feather

  process_controlactual_az_2:
    run: r:latest analysis/process_data.R actual az 2
    needs:
    - process_treated
    - match_potential_az_2
    - extract_controlpotential_az_2
    - process_controlpotential_az_2
    - extract_controlactual_az_2
    - process_controlactual_az_1
    outputs:
      highly_sensitive:
        rds: output/az/matchround2/actual/*.rds
        csv: output/az/matchround2/actual/*.csv.gz

  extract_controlpotential_az_3:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlpotential
      --output-file output/az/matchround3/extract/input_controlpotential.feather --param
      cohort=az --param matching_round=3 --param index_date=2021-02-01
    needs:
    - design
    - process_controlactual_az_2
    outputs:
      highly_sensitive:
        cohort: output/az/matchround3/extract/input_controlpotential.feather

  process_controlpotential_az_3:
    run: r:latest analysis/process_data.R potential az 3
    needs:
    - extract_controlpotential_az_3
    outputs:
      highly_sensitive:
        rds: output/az/matchround3/process/*.rds

  match_potential_az_3:
    run: r:latest analysis/matching/match_potential.R az 3
    needs:
    - process_treated
    - process_controlpotential_az_3
    - process_controlactual_az_2
    outputs:
      highly_sensitive:
        rds: output/az/matchround3/potential/*.rds
        csv: output/az/matchround3/potential/*.csv.gz

  extract_controlactual_az_3:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlactual
      --output-file output/az/matchround3/extract/input_controlactual.feather --param
      cohort=az --param matching_round=3
    needs:
    - design
    - match_potential_az_3
    outputs:
      highly_sensitive:
        cohort: output/az/matchround3/extract/input_controlactual.feather

  process_controlactual_az_3:
    run: r:latest analysis/process_data.R actual az 3
    needs:
    - process_treated
    - match_potential_az_3
    - extract_controlpotential_az_3
    - process_controlpotential_az_3
    - extract_controlactual_az_3
    - process_controlactual_az_2
    outputs:
      highly_sensitive:
        rds: output/az/matchround3/actual/*.rds
        csv: output/az/matchround3/actual/*.csv.gz

  extract_controlpotential_az_4:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlpotential
      --output-file output/az/matchround4/extract/input_controlpotential.feather --param
      cohort=az --param matching_round=4 --param index_date=2021-02-15
    needs:
    - design
    - process_controlactual_az_3
    outputs:
      highly_sensitive:
        cohort: output/az/matchround4/extract/input_controlpotential.feather

  process_controlpotential_az_4:
    run: r:latest analysis/process_data.R potential az 4
    needs:
    - extract_controlpotential_az_4
    outputs:
      highly_sensitive:
        rds: output/az/matchround4/process/*.rds

  match_potential_az_4:
    run: r:latest analysis/matching/match_potential.R az 4
    needs:
    - process_treated
    - process_controlpotential_az_4
    - process_controlactual_az_3
    outputs:
      highly_sensitive:
        rds: output/az/matchround4/potential/*.rds
        csv: output/az/matchround4/potential/*.csv.gz

  extract_controlactual_az_4:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlactual
      --output-file output/az/matchround4/extract/input_controlactual.feather --param
      cohort=az --param matching_round=4
    needs:
    - design
    - match_potential_az_4
    outputs:
      highly_sensitive:
        cohort: output/az/matchround4/extract/input_controlactual.feather

  process_controlactual_az_4:
    run: r:latest analysis/process_data.R actual az 4
    needs:
    - process_treated
    - match_potential_az_4
    - extract_controlpotential_az_4
    - process_controlpotential_az_4
    - extract_controlactual_az_4
    - process_controlactual_az_3
    outputs:
      highly_sensitive:
        rds: output/az/matchround4/actual/*.rds
        csv: output/az/matchround4/actual/*.csv.gz

  extract_controlfinal_az:
    run: cohortextractor:latest generate_cohort --study-definition study_definition_controlfinal
      --output-file output/az/extract/input_controlfinal.feather --param cohort=az
      --param n_matching_rounds=4
    needs:
    - design
    - process_controlactual_az_4
    outputs:
      highly_sensitive:
        extract: output/az/extract/input_controlfinal.feather

  dummydata_controlfinal_az:
    run: r:latest analysis/dummy/dummydata_controlfinal.R az
    needs:
    - process_controlactual_az_1
    - process_controlactual_az_2
    - process_controlactual_az_3
    - process_controlactual_az_4
    outputs:
      highly_sensitive:
        dummydata_controlfinal: output/az/dummydata/dummy_control_final.feather

  process_controlfinal_az:
    run: r:latest analysis/process_data.R final az
    needs:
    - process_controlactual_az_1
    - process_controlactual_az_2
    - process_controlactual_az_3
    - process_controlactual_az_4
    - extract_controlfinal_az
    - process_treated
    - dummydata_controlfinal_az
    outputs:
      highly_sensitive:
        extract: output/az/match/*.rds

  table1_az:
    run: r:latest analysis/matching/table1.R az
    needs:
    - process_controlfinal_az
    outputs:
      moderately_sensitive:
        csv: output/az/table1/*.csv

  ## # # # # # # # # # # # # # # # # # # # 
  ## Model 

  km_az_all_postest:
    run: r:latest analysis/model/km.R az all postest
    needs:
    - process_controlfinal_az
    outputs:
      moderately_sensitive:
        rds: output/az/models/km/all/postest/*.rds
        png: output/az/models/km/all/postest/*.png

  km_az_all_emergency:
    run: r:latest analysis/model/km.R az all emergency
    needs:
    - process_controlfinal_az
    outputs:
      moderately_sensitive:
        rds: output/az/models/km/all/emergency/*.rds
        png: output/az/models/km/all/emergency/*.png

  km_az_all_covidemergency:
    run: r:latest analysis/model/km.R az all covidemergency
    needs:
    - process_controlfinal_az
    outputs:
      moderately_sensitive:
        rds: output/az/models/km/all/covidemergency/*.rds
        png: output/az/models/km/all/covidemergency/*.png

  km_az_all_covidadmitted:
    run: r:latest analysis/model/km.R az all covidadmitted
    needs:
    - process_controlfinal_az
    outputs:
      moderately_sensitive:
        rds: output/az/models/km/all/covidadmitted/*.rds
        png: output/az/models/km/all/covidadmitted/*.png

  km_az_all_covidcritcare:
    run: r:latest analysis/model/km.R az all covidcritcare
    needs:
    - process_controlfinal_az
    outputs:
      moderately_sensitive:
        rds: output/az/models/km/all/covidcritcare/*.rds
        png: output/az/models/km/all/covidcritcare/*.png

  km_az_all_coviddeath:
    run: r:latest analysis/model/km.R az all coviddeath
    needs:
    - process_controlfinal_az
    outputs:
      moderately_sensitive:
        rds: output/az/models/km/all/coviddeath/*.rds
        png: output/az/models/km/all/coviddeath/*.png

  km_az_all_noncoviddeath:
    run: r:latest analysis/model/km.R az all noncoviddeath
    needs:
    - process_controlfinal_az
    outputs:
      moderately_sensitive:
        rds: output/az/models/km/all/noncoviddeath/*.rds
        png: output/az/models/km/all/noncoviddeath/*.png

  km_az_ageband2_postest:
    run: r:latest analysis/model/km.R az ageband2 postest
    needs:
    - process_controlfinal_az
    outputs:
      moderately_sensitive:
        rds: output/az/models/km/ageband2/postest/*.rds
        png: output/az/models/km/ageband2/postest/*.png

  km_az_ageband2_emergency:
    run: r:latest analysis/model/km.R az ageband2 emergency
    needs:
    - process_controlfinal_az
    outputs:
      moderately_sensitive:
        rds: output/az/models/km/ageband2/emergency/*.rds
        png: output/az/models/km/ageband2/emergency/*.png

  km_az_ageband2_covidemergency:
    run: r:latest analysis/model/km.R az ageband2 covidemergency
    needs:
    - process_controlfinal_az
    outputs:
      moderately_sensitive:
        rds: output/az/models/km/ageband2/covidemergency/*.rds
        png: output/az/models/km/ageband2/covidemergency/*.png

  km_az_ageband2_covidadmitted:
    run: r:latest analysis/model/km.R az ageband2 covidadmitted
    needs:
    - process_controlfinal_az
    outputs:
      moderately_sensitive:
        rds: output/az/models/km/ageband2/covidadmitted/*.rds
        png: output/az/models/km/ageband2/covidadmitted/*.png

  km_az_ageband2_covidcritcare:
    run: r:latest analysis/model/km.R az ageband2 covidcritcare
    needs:
    - process_controlfinal_az
    outputs:
      moderately_sensitive:
        rds: output/az/models/km/ageband2/covidcritcare/*.rds
        png: output/az/models/km/ageband2/covidcritcare/*.png

  km_az_ageband2_coviddeath:
    run: r:latest analysis/model/km.R az ageband2 coviddeath
    needs:
    - process_controlfinal_az
    outputs:
      moderately_sensitive:
        rds: output/az/models/km/ageband2/coviddeath/*.rds
        png: output/az/models/km/ageband2/coviddeath/*.png

  km_az_ageband2_noncoviddeath:
    run: r:latest analysis/model/km.R az ageband2 noncoviddeath
    needs:
    - process_controlfinal_az
    outputs:
      moderately_sensitive:
        rds: output/az/models/km/ageband2/noncoviddeath/*.rds
        png: output/az/models/km/ageband2/noncoviddeath/*.png

  ## #### End ####