configfile: "config.yaml" include: "rules/preprocessing.snakefile" include: "rules/features.snakefile" include: "rules/reports.snakefile" rule all: input: expand("data/raw/{pid}/{sensor}_raw.csv", pid=config["PIDS"], sensor=config["SENSORS"]), expand("data/raw/{pid}/{sensor}_with_datetime.csv", pid=config["PIDS"], sensor=config["SENSORS"]), expand("data/processed/{pid}/battery_deltas.csv", pid=config["PIDS"]), expand("data/interim/{pid}/phone_valid_sensed_days.csv", pid=config["PIDS"]), expand("data/processed/{pid}/sms_{sms_type}_{day_segment}.csv", pid=config["PIDS"], sms_type = config["SMS"]["TYPES"], day_segment = config["SMS"]["DAY_SEGMENTS"]), expand("data/processed/{pid}/call_{call_type}_{segment}.csv", pid=config["PIDS"], call_type=config["CALLS"]["TYPES"], segment = config["CALLS"]["DAY_SEGMENTS"]), expand("data/processed/{pid}/location_barnett.csv", pid=config["PIDS"]), expand("data/processed/{pid}/bluetooth_{segment}.csv", pid=config["PIDS"], segment = config["BLUETOOTH"]["DAY_SEGMENTS"]), expand("data/processed/{pid}/google_activity_recognition.csv",pid=config["PIDS"]), # Reports expand("reports/figures/{pid}/{sensor}_heatmap_rows.html", pid=config["PIDS"], sensor=config["SENSORS"]), expand("reports/figures/{pid}/compliance_heatmap.html", pid=config["PIDS"], sensor=config["SENSORS"]), # --- Packrat Rules --- # ## Taken from https://github.com/lachlandeer/snakemake-econ-r ## packrat_install: installs packrat onto machine rule packrat_install: shell: "R -e 'install.packages(\"packrat\", repos=\"http://cran.us.r-project.org\")'" ## packrat_install: initialize a packrat environment for this project rule packrat_init: shell: "R -e 'packrat::init()'" ## packrat_snap : Look for new R packages in files & archives them rule packrat_snap: shell: "R -e 'packrat::snapshot()'" ## packrat_restore: Installs archived packages onto a new machine rule packrat_restore: shell: "R -e 'packrat::restore()'"