rapids/Snakefile

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configfile: "config.yaml"
include: "rules/preprocessing.snakefile"
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include: "rules/features.snakefile"
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include: "rules/reports.snakefile"
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rule all:
input:
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expand("data/raw/{pid}/{sensor}_raw.csv", pid=config["PIDS"], sensor=config["SENSORS"]),
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expand("data/raw/{pid}/{sensor}_with_datetime.csv", pid=config["PIDS"], sensor=config["SENSORS"]),
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expand("data/processed/{pid}/battery_deltas.csv", pid=config["PIDS"]),
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expand("data/interim/{pid}/phone_valid_sensed_days.csv", pid=config["PIDS"]),
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expand("data/processed/{pid}/com_sms_{sms_type}_{day_segment}_{metric}.csv",
pid=config["PIDS"],
sms_type = config["COM_SMS"]["SMS_TYPES"],
day_segment = config["COM_SMS"]["DAY_SEGMENTS"],
metric = config["COM_SMS"]["METRICS"]),
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expand("data/processed/{pid}/com_call_{call_type}_{segment}_{metric}.csv",
pid=config["PIDS"],
call_type = config["COM_CALL"]["CALL_TYPE_MISSED"],
segment = config["COM_CALL"]["DAY_SEGMENTS"],
metric = config["COM_CALL"]["METRICS_MISSED"]),
expand("data/processed/{pid}/com_call_{call_type}_{segment}_{metric}.csv",
pid=config["PIDS"],
call_type = config["COM_CALL"]["CALL_TYPE_TAKEN"],
segment = config["COM_CALL"]["DAY_SEGMENTS"],
metric = config["COM_CALL"]["METRICS_TAKEN"]),
expand("data/processed/{pid}/location_barnett.csv", pid=config["PIDS"]),
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expand("data/processed/{pid}/bluetooth_{segment}.csv",
pid=config["PIDS"],
segment = config["BLUETOOTH"]["DAY_SEGMENTS"]),
# 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"]),
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# --- 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()'"