rapids/rules/features.snakefile

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def optional_ar_input(wildcards):
with open("data/external/"+wildcards.pid, encoding="ISO-8859-1") as external_file:
external_file_content = external_file.readlines()
platform = external_file_content[1].strip()
if platform == "android":
return ["data/raw/{pid}/plugin_google_activity_recognition_with_datetime_unified.csv",
"data/processed/{pid}/plugin_google_activity_recognition_deltas.csv"]
else:
return ["data/raw/{pid}/plugin_ios_activity_recognition_with_datetime_unified.csv",
"data/processed/{pid}/plugin_ios_activity_recognition_deltas.csv"]
def optional_location_input(wildcards):
if config["BARNETT_LOCATION"]["LOCATIONS_TO_USE"] == "RESAMPLE_FUSED":
return rules.resample_fused_location.output
else:
return "data/raw/{pid}/locations_with_datetime.csv",
rule sms_features:
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input:
"data/raw/{pid}/messages_with_datetime.csv"
params:
sms_type = "{sms_type}",
day_segment = "{day_segment}",
features = lambda wildcards: config["SMS"]["FEATURES"][wildcards.sms_type]
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output:
"data/processed/{pid}/sms_{sms_type}_{day_segment}.csv"
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script:
"../src/features/sms_features.R"
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rule call_features:
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input:
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"data/raw/{pid}/calls_with_datetime_unified.csv"
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params:
call_type = "{call_type}",
day_segment = "{day_segment}",
features = lambda wildcards: config["CALLS"]["FEATURES"][wildcards.call_type]
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output:
"data/processed/{pid}/call_{call_type}_{day_segment}.csv"
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script:
"../src/features/call_features.R"
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rule battery_deltas:
input:
"data/raw/{pid}/battery_with_datetime_unified.csv"
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output:
"data/processed/{pid}/battery_deltas.csv"
script:
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"../src/features/battery_deltas.R"
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rule screen_deltas:
input:
screen = "data/raw/{pid}/screen_with_datetime.csv",
participant_info = "data/external/{pid}"
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output:
"data/processed/{pid}/screen_deltas.csv"
script:
"../src/features/screen_deltas.R"
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rule google_activity_recognition_deltas:
input:
"data/raw/{pid}/plugin_google_activity_recognition_with_datetime_unified.csv"
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output:
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"data/processed/{pid}/plugin_google_activity_recognition_deltas.csv"
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script:
"../src/features/activity_recognition_deltas.R"
rule ios_activity_recognition_deltas:
input:
"data/raw/{pid}/plugin_ios_activity_recognition_with_datetime_unified.csv"
output:
"data/processed/{pid}/plugin_ios_activity_recognition_deltas.csv"
script:
"../src/features/activity_recognition_deltas.R"
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rule location_barnett_features:
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input:
locations = optional_location_input
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params:
features = config["BARNETT_LOCATION"]["FEATURES"],
locations_to_use = config["BARNETT_LOCATION"]["LOCATIONS_TO_USE"],
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accuracy_limit = config["BARNETT_LOCATION"]["ACCURACY_LIMIT"],
timezone = config["BARNETT_LOCATION"]["TIMEZONE"],
minutes_data_used = config["BARNETT_LOCATION"]["MINUTES_DATA_USED"],
day_segment = "{day_segment}"
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output:
"data/processed/{pid}/location_barnett_{day_segment}.csv"
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script:
"../src/features/location_barnett_features.R"
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rule bluetooth_features:
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input:
"data/raw/{pid}/bluetooth_with_datetime.csv"
params:
day_segment = "{day_segment}",
features = config["BLUETOOTH"]["FEATURES"]
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output:
"data/processed/{pid}/bluetooth_{day_segment}.csv"
script:
"../src/features/bluetooth_features.R"
rule activity_features:
input:
optional_ar_input
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params:
segment = "{day_segment}",
features = config["ACTIVITY_RECOGNITION"]["FEATURES"]
output:
"data/processed/{pid}/activity_recognition_{day_segment}.csv"
script:
"../src/features/activity_recognition.py"
rule battery_features:
input:
"data/processed/{pid}/battery_deltas.csv"
params:
day_segment = "{day_segment}",
features = config["BATTERY"]["FEATURES"]
output:
"data/processed/{pid}/battery_{day_segment}.csv"
script:
"../src/features/battery_features.py"
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rule screen_features:
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input:
screen_deltas = "data/processed/{pid}/screen_deltas.csv",
phone_sensed_bins = "data/interim/{pid}/phone_sensed_bins.csv"
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params:
day_segment = "{day_segment}",
reference_hour_first_use = config["SCREEN"]["REFERENCE_HOUR_FIRST_USE"],
features_deltas = config["SCREEN"]["FEATURES_DELTAS"],
episode_types = config["SCREEN"]["EPISODE_TYPES"],
bin_size = config["PHONE_VALID_SENSED_DAYS"]["BIN_SIZE"]
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output:
"data/processed/{pid}/screen_{day_segment}.csv"
script:
"../src/features/screen_features.py"
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rule light_features:
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input:
"data/raw/{pid}/light_with_datetime.csv",
params:
day_segment = "{day_segment}",
features = config["LIGHT"]["FEATURES"],
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output:
"data/processed/{pid}/light_{day_segment}.csv"
script:
"../src/features/light_features.py"
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rule accelerometer_features:
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input:
"data/raw/{pid}/accelerometer_with_datetime.csv",
params:
day_segment = "{day_segment}",
features = config["ACCELEROMETER"]["FEATURES"],
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output:
"data/processed/{pid}/accelerometer_{day_segment}.csv"
script:
"../src/features/accelerometer_features.py"
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rule applications_foreground_features:
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input:
"data/interim/{pid}/applications_foreground_with_datetime_with_genre.csv",
params:
day_segment = "{day_segment}",
single_categories = config["APPLICATIONS_FOREGROUND"]["SINGLE_CATEGORIES"],
multiple_categories = config["APPLICATIONS_FOREGROUND"]["MULTIPLE_CATEGORIES"],
single_apps = config["APPLICATIONS_FOREGROUND"]["SINGLE_APPS"],
excluded_categories = config["APPLICATIONS_FOREGROUND"]["EXCLUDED_CATEGORIES"],
excluded_apps = config["APPLICATIONS_FOREGROUND"]["EXCLUDED_APPS"],
features = config["APPLICATIONS_FOREGROUND"]["FEATURES"],
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output:
"data/processed/{pid}/applications_foreground_{day_segment}.csv"
script:
"../src/features/applications_foreground_features.py"
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rule wifi_features:
input:
"data/raw/{pid}/wifi_with_datetime.csv"
params:
day_segment = "{day_segment}",
features = config["WIFI"]["FEATURES"]
output:
"data/processed/{pid}/wifi_{day_segment}.csv"
script:
"../src/features/wifi_features.R"
rule fitbit_heartrate_features:
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input:
heartrate_summary_data = "data/raw/{pid}/fitbit_heartrate_summary_with_datetime.csv",
heartrate_intraday_data = "data/raw/{pid}/fitbit_heartrate_intraday_with_datetime.csv"
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params:
day_segment = "{day_segment}",
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summary_features = config["HEARTRATE"]["SUMMARY_FEATURES"],
intraday_features = config["HEARTRATE"]["INTRADAY_FEATURES"]
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output:
"data/processed/{pid}/fitbit_heartrate_{day_segment}.csv"
script:
"../src/features/fitbit_heartrate_features.py"
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rule fitbit_step_features:
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input:
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step_data = "data/raw/{pid}/fitbit_steps_intraday_with_datetime.csv"
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params:
day_segment = "{day_segment}",
features_all_steps = config["STEP"]["FEATURES"]["ALL_STEPS"],
features_sedentary_bout = config["STEP"]["FEATURES"]["SEDENTARY_BOUT"],
features_active_bout = config["STEP"]["FEATURES"]["ACTIVE_BOUT"],
threshold_active_bout = config["STEP"]["THRESHOLD_ACTIVE_BOUT"],
include_zero_step_rows = config["STEP"]["INCLUDE_ZERO_STEP_ROWS"]
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output:
"data/processed/{pid}/fitbit_step_{day_segment}.csv"
script:
"../src/features/fitbit_step_features.py"
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rule fitbit_sleep_features:
input:
sleep_summary_data = "data/raw/{pid}/fitbit_sleep_summary_with_datetime.csv",
sleep_intraday_data = "data/raw/{pid}/fitbit_sleep_intraday_with_datetime.csv"
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params:
day_segment = "{day_segment}",
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summary_features = config["SLEEP"]["SUMMARY_FEATURES"],
sleep_types = config["SLEEP"]["SLEEP_TYPES"]
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output:
"data/processed/{pid}/fitbit_sleep_{day_segment}.csv"
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script:
"../src/features/fitbit_sleep_features.py"