rule restore_sql_file: input: sql_file = "data/external/rapids_example.sql", db_credentials = ".env" params: group = config["DOWNLOAD_PARTICIPANTS"]["GROUP"] output: touch("data/interim/restore_sql_file.done") script: "../src/data/restore_sql_file.py" rule create_example_participant_files: output: expand("data/external/{pid}", pid = ["example01", "example02"]) shell: "echo 'a748ee1a-1d0b-4ae9-9074-279a2b6ba524\nandroid\ntest01\n2020/04/23,2020/05/04\n' >> ./data/external/example01 && echo '13dbc8a3-dae3-4834-823a-4bc96a7d459d\nios\ntest02\n2020/04/23,2020/05/04\n' >> ./data/external/example02" rule download_participants: params: group = config["DOWNLOAD_PARTICIPANTS"]["GROUP"], ignored_device_ids = config["DOWNLOAD_PARTICIPANTS"]["IGNORED_DEVICE_IDS"], timezone = config["TIMEZONE"] priority: 1 script: "../src/data/download_participants.R" rule download_dataset: input: "data/external/{pid}" params: group = config["DOWNLOAD_DATASET"]["GROUP"], table = "{sensor}", timezone = config["TIMEZONE"], aware_multiplatform_tables = config["ACTIVITY_RECOGNITION"]["DB_TABLE"]["ANDROID"] + "," + config["ACTIVITY_RECOGNITION"]["DB_TABLE"]["IOS"] + "," + config["CONVERSATION"]["DB_TABLE"]["ANDROID"] + "," + config["CONVERSATION"]["DB_TABLE"]["IOS"], unifiable_sensors = {"calls": config["CALLS"]["DB_TABLE"], "battery": config["BATTERY"]["DB_TABLE"], "screen": config["SCREEN"]["DB_TABLE"], "ios_activity_recognition": config["ACTIVITY_RECOGNITION"]["DB_TABLE"]["IOS"], "ios_conversation": config["CONVERSATION"]["DB_TABLE"]["IOS"]} output: "data/raw/{pid}/{sensor}_raw.csv" script: "../src/data/download_dataset.R" PHONE_SENSORS = [] PHONE_SENSORS.extend([config["MESSAGES"]["DB_TABLE"], config["CALLS"]["DB_TABLE"], config["BARNETT_LOCATION"]["DB_TABLE"], config["DORYAB_LOCATION"]["DB_TABLE"], config["BLUETOOTH"]["DB_TABLE"], config["BATTERY"]["DB_TABLE"], config["SCREEN"]["DB_TABLE"], config["LIGHT"]["DB_TABLE"], config["ACCELEROMETER"]["DB_TABLE"], config["APPLICATIONS_FOREGROUND"]["DB_TABLE"], config["CONVERSATION"]["DB_TABLE"]["ANDROID"], config["CONVERSATION"]["DB_TABLE"]["IOS"], config["ACTIVITY_RECOGNITION"]["DB_TABLE"]["ANDROID"], config["ACTIVITY_RECOGNITION"]["DB_TABLE"]["IOS"]]) PHONE_SENSORS.extend(config["PHONE_VALID_SENSED_BINS"]["DB_TABLES"]) if len(config["WIFI"]["DB_TABLE"]["VISIBLE_ACCESS_POINTS"]) > 0: PHONE_SENSORS.append(config["WIFI"]["DB_TABLE"]["VISIBLE_ACCESS_POINTS"]) if len(config["WIFI"]["DB_TABLE"]["CONNECTED_ACCESS_POINTS"]) > 0: PHONE_SENSORS.append(config["WIFI"]["DB_TABLE"]["CONNECTED_ACCESS_POINTS"]) rule readable_datetime: input: sensor_input = rules.download_dataset.output params: timezones = None, fixed_timezone = config["READABLE_DATETIME"]["FIXED_TIMEZONE"] wildcard_constraints: sensor = '.*(' + '|'.join([re.escape(x) for x in PHONE_SENSORS]) + ').*' # only process smartphone sensors, not fitbit output: "data/raw/{pid}/{sensor}_with_datetime.csv" script: "../src/data/readable_datetime.R" rule phone_sensed_bins: input: all_sensors = optional_phone_sensed_bins_input params: bin_size = config["PHONE_VALID_SENSED_BINS"]["BIN_SIZE"] output: "data/interim/{pid}/phone_sensed_bins.csv" script: "../src/data/phone_sensed_bins.R" rule phone_valid_sensed_days: input: phone_sensed_bins = "data/interim/{pid}/phone_sensed_bins.csv" params: min_valid_hours_per_day = "{min_valid_hours_per_day}", min_valid_bins_per_hour = "{min_valid_bins_per_hour}" output: "data/interim/{pid}/phone_valid_sensed_days_{min_valid_hours_per_day}hours_{min_valid_bins_per_hour}bins.csv" script: "../src/data/phone_valid_sensed_days.R" rule unify_ios_android: input: sensor_data = "data/raw/{pid}/{sensor}_with_datetime.csv", participant_info = "data/external/{pid}" params: sensor = "{sensor}", unifiable_sensors = {"calls": config["CALLS"]["DB_TABLE"], "battery": config["BATTERY"]["DB_TABLE"], "screen": config["SCREEN"]["DB_TABLE"], "ios_activity_recognition": config["ACTIVITY_RECOGNITION"]["DB_TABLE"]["IOS"], "ios_conversation": config["CONVERSATION"]["DB_TABLE"]["IOS"]} output: "data/raw/{pid}/{sensor}_with_datetime_unified.csv" script: "../src/data/unify_ios_android.R" rule resample_fused_location: input: locations = "data/raw/{pid}/{sensor}_raw.csv", phone_sensed_bins = rules.phone_sensed_bins.output params: bin_size = config["PHONE_VALID_SENSED_BINS"]["BIN_SIZE"], timezone = config["RESAMPLE_FUSED_LOCATION"]["TIMEZONE"], consecutive_threshold = config["RESAMPLE_FUSED_LOCATION"]["CONSECUTIVE_THRESHOLD"], time_since_valid_location = config["RESAMPLE_FUSED_LOCATION"]["TIME_SINCE_VALID_LOCATION"] output: "data/raw/{pid}/{sensor}_resampled.csv" script: "../src/data/resample_fused_location.R" rule application_genres: input: "data/raw/{pid}/{sensor}_with_datetime.csv" params: catalogue_source = config["APPLICATION_GENRES"]["CATALOGUE_SOURCE"], catalogue_file = config["APPLICATION_GENRES"]["CATALOGUE_FILE"], update_catalogue_file = config["APPLICATION_GENRES"]["UPDATE_CATALOGUE_FILE"], scrape_missing_genres = config["APPLICATION_GENRES"]["SCRAPE_MISSING_GENRES"] output: "data/interim/{pid}/{sensor}_with_datetime_with_genre.csv" script: "../src/data/application_genres.R" rule fitbit_heartrate_with_datetime: input: expand("data/raw/{{pid}}/{fitbit_table}_raw.csv", fitbit_table=config["HEARTRATE"]["DB_TABLE"]) params: local_timezone = config["READABLE_DATETIME"]["FIXED_TIMEZONE"], fitbit_sensor = "heartrate" output: summary_data = "data/raw/{pid}/fitbit_heartrate_summary_with_datetime.csv", intraday_data = "data/raw/{pid}/fitbit_heartrate_intraday_with_datetime.csv" script: "../src/data/fitbit_readable_datetime.py" rule fitbit_step_with_datetime: input: expand("data/raw/{{pid}}/{fitbit_table}_raw.csv", fitbit_table=config["STEP"]["DB_TABLE"]) params: local_timezone = config["READABLE_DATETIME"]["FIXED_TIMEZONE"], fitbit_sensor = "steps" output: intraday_data = "data/raw/{pid}/fitbit_step_intraday_with_datetime.csv" script: "../src/data/fitbit_readable_datetime.py" rule fitbit_sleep_with_datetime: input: expand("data/raw/{{pid}}/{fitbit_table}_raw.csv", fitbit_table=config["SLEEP"]["DB_TABLE"]) params: local_timezone = config["READABLE_DATETIME"]["FIXED_TIMEZONE"], fitbit_sensor = "sleep" output: summary_data = "data/raw/{pid}/fitbit_sleep_summary_with_datetime.csv", intraday_data = "data/raw/{pid}/fitbit_sleep_intraday_with_datetime.csv" script: "../src/data/fitbit_readable_datetime.py"