rule download:
     output:
        "data/weekly-incidence.csv"
     shell:
        "wget -O {output} http://www.sentiweb.fr/datasets/incidence-PAY-3.csv"

rule preprocess:
     input:
        "data/weekly-incidence.csv"
     output:
        data="data/preprocessed-weekly-incidence.csv",
        errorlog="data/errors-from-preprocessing.txt"
     script:
        "scripts/preprocess.py"

rule plot:
     input:
        "data/preprocessed-weekly-incidence.csv"
     output:
        "data/weekly-incidence-plot.png",
        "data/weekly-incidence-plot-last-years.png"
     script:
        "scripts/incidence-plots.R"

rule annual_incidence:
     input:
        "data/preprocessed-weekly-incidence.csv"
     output:
        "data/annual-incidence.csv"
     script:
        "scripts/annual-incidence.R"

rule histogram:
     input:
        "data/annual-incidence.csv"
     output:
        "data/annual-incidence-histogram.png"
     script:
        "scripts/annual-incidence-histogram.R"

rule all:
     input:
        "data/weekly-incidence.csv",
        "data/preprocessed-weekly-incidence.csv",
        "data/weekly-incidence-plot.png",
        "data/weekly-incidence-plot-last-years.png",
        "data/annual-incidence.csv",
        "data/annual-incidence-histogram.png"