Replace SRC LANGUAGE and FOLDER with SCRIPT
JulioV
parent
5f355560de
commit
4528ab3641
62
Snakefile
62
Snakefile
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@ -28,7 +28,7 @@ for provider in config["PHONE_DATA_YIELD"]["PROVIDERS"].keys():
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files_to_compute.extend(expand("data/raw/{pid}/{sensor}_raw.csv", pid=config["PIDS"], sensor=map(str.lower, config["PHONE_DATA_YIELD"]["SENSORS"])))
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files_to_compute.extend(expand("data/interim/{pid}/phone_yielded_timestamps.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_yielded_timestamps_with_datetime.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_data_yield_features/phone_data_yield_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_DATA_YIELD"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/interim/{pid}/phone_data_yield_features/phone_data_yield_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_DATA_YIELD"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/processed/features/{pid}/phone_data_yield.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
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files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
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@ -37,7 +37,7 @@ for provider in config["PHONE_MESSAGES"]["PROVIDERS"].keys():
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if config["PHONE_MESSAGES"]["PROVIDERS"][provider]["COMPUTE"]:
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files_to_compute.extend(expand("data/raw/{pid}/phone_messages_raw.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/raw/{pid}/phone_messages_with_datetime.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_messages_features/phone_messages_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_MESSAGES"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/interim/{pid}/phone_messages_features/phone_messages_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_MESSAGES"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/processed/features/{pid}/phone_messages.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
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files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
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@ -46,7 +46,7 @@ for provider in config["PHONE_CALLS"]["PROVIDERS"].keys():
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if config["PHONE_CALLS"]["PROVIDERS"][provider]["COMPUTE"]:
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files_to_compute.extend(expand("data/raw/{pid}/phone_calls_raw.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/raw/{pid}/phone_calls_with_datetime.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_calls_features/phone_calls_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_CALLS"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/interim/{pid}/phone_calls_features/phone_calls_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_CALLS"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/processed/features/{pid}/phone_calls.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
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files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
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@ -55,7 +55,7 @@ for provider in config["PHONE_BLUETOOTH"]["PROVIDERS"].keys():
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if config["PHONE_BLUETOOTH"]["PROVIDERS"][provider]["COMPUTE"]:
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files_to_compute.extend(expand("data/raw/{pid}/phone_bluetooth_raw.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/raw/{pid}/phone_bluetooth_with_datetime.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_bluetooth_features/phone_bluetooth_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_BLUETOOTH"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/interim/{pid}/phone_bluetooth_features/phone_bluetooth_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_BLUETOOTH"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/processed/features/{pid}/phone_bluetooth.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
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files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
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@ -67,7 +67,7 @@ for provider in config["PHONE_ACTIVITY_RECOGNITION"]["PROVIDERS"].keys():
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files_to_compute.extend(expand("data/interim/{pid}/phone_activity_recognition_episodes.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_activity_recognition_episodes_resampled.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_activity_recognition_episodes_resampled_with_datetime.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_activity_recognition_features/phone_activity_recognition_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_ACTIVITY_RECOGNITION"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/interim/{pid}/phone_activity_recognition_features/phone_activity_recognition_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_ACTIVITY_RECOGNITION"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/processed/features/{pid}/phone_activity_recognition.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
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files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
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@ -78,7 +78,7 @@ for provider in config["PHONE_BATTERY"]["PROVIDERS"].keys():
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files_to_compute.extend(expand("data/interim/{pid}/phone_battery_episodes.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_battery_episodes_resampled.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_battery_episodes_resampled_with_datetime.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_battery_features/phone_battery_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_BATTERY"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/interim/{pid}/phone_battery_features/phone_battery_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_BATTERY"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/processed/features/{pid}/phone_battery.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
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files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
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@ -94,7 +94,7 @@ for provider in config["PHONE_SCREEN"]["PROVIDERS"].keys():
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files_to_compute.extend(expand("data/interim/{pid}/phone_screen_episodes.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_screen_episodes_resampled.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_screen_episodes_resampled_with_datetime.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_screen_features/phone_screen_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_SCREEN"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/interim/{pid}/phone_screen_features/phone_screen_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_SCREEN"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/processed/features/{pid}/phone_screen.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
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files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
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@ -103,7 +103,7 @@ for provider in config["PHONE_LIGHT"]["PROVIDERS"].keys():
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if config["PHONE_LIGHT"]["PROVIDERS"][provider]["COMPUTE"]:
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files_to_compute.extend(expand("data/raw/{pid}/phone_light_raw.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/raw/{pid}/phone_light_with_datetime.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_light_features/phone_light_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_LIGHT"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/interim/{pid}/phone_light_features/phone_light_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_LIGHT"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/processed/features/{pid}/phone_light.csv", pid=config["PIDS"],))
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files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
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files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
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@ -112,7 +112,7 @@ for provider in config["PHONE_ACCELEROMETER"]["PROVIDERS"].keys():
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if config["PHONE_ACCELEROMETER"]["PROVIDERS"][provider]["COMPUTE"]:
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files_to_compute.extend(expand("data/raw/{pid}/phone_accelerometer_raw.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/raw/{pid}/phone_accelerometer_with_datetime.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_accelerometer_features/phone_accelerometer_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_ACCELEROMETER"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/interim/{pid}/phone_accelerometer_features/phone_accelerometer_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_ACCELEROMETER"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/processed/features/{pid}/phone_accelerometer.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
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files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
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@ -122,7 +122,7 @@ for provider in config["PHONE_APPLICATIONS_FOREGROUND"]["PROVIDERS"].keys():
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files_to_compute.extend(expand("data/raw/{pid}/phone_applications_foreground_raw.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/raw/{pid}/phone_applications_foreground_with_datetime.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/raw/{pid}/phone_applications_foreground_with_datetime_with_categories.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_applications_foreground_features/phone_applications_foreground_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_APPLICATIONS_FOREGROUND"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/interim/{pid}/phone_applications_foreground_features/phone_applications_foreground_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_APPLICATIONS_FOREGROUND"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/processed/features/{pid}/phone_applications_foreground.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
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files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
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@ -131,7 +131,7 @@ for provider in config["PHONE_WIFI_VISIBLE"]["PROVIDERS"].keys():
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if config["PHONE_WIFI_VISIBLE"]["PROVIDERS"][provider]["COMPUTE"]:
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files_to_compute.extend(expand("data/raw/{pid}/phone_wifi_visible_raw.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/raw/{pid}/phone_wifi_visible_with_datetime.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_wifi_visible_features/phone_wifi_visible_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_WIFI_VISIBLE"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/interim/{pid}/phone_wifi_visible_features/phone_wifi_visible_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_WIFI_VISIBLE"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/processed/features/{pid}/phone_wifi_visible.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
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files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
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@ -140,7 +140,7 @@ for provider in config["PHONE_WIFI_CONNECTED"]["PROVIDERS"].keys():
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if config["PHONE_WIFI_CONNECTED"]["PROVIDERS"][provider]["COMPUTE"]:
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files_to_compute.extend(expand("data/raw/{pid}/phone_wifi_connected_raw.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/raw/{pid}/phone_wifi_connected_with_datetime.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_wifi_connected_features/phone_wifi_connected_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_WIFI_CONNECTED"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/interim/{pid}/phone_wifi_connected_features/phone_wifi_connected_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_WIFI_CONNECTED"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/processed/features/{pid}/phone_wifi_connected.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
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files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
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@ -149,7 +149,7 @@ for provider in config["PHONE_CONVERSATION"]["PROVIDERS"].keys():
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if config["PHONE_CONVERSATION"]["PROVIDERS"][provider]["COMPUTE"]:
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files_to_compute.extend(expand("data/raw/{pid}/phone_conversation_raw.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/raw/{pid}/phone_conversation_with_datetime.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_conversation_features/phone_conversation_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_CONVERSATION"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/interim/{pid}/phone_conversation_features/phone_conversation_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_CONVERSATION"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/processed/features/{pid}/phone_conversation.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
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files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
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@ -161,7 +161,7 @@ if isinstance(config["PHONE_APPLICATIONS_CRASHES"]["PROVIDERS"], dict):
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files_to_compute.extend(expand("data/raw/{pid}/phone_applications_crashes_raw.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/raw/{pid}/phone_applications_crashes_with_datetime.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/raw/{pid}/phone_applications_crashes_with_datetime_with_categories.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_applications_crashes_features/phone_applications_crashes_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_APPLICATIONS_CRASHES"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/interim/{pid}/phone_applications_crashes_features/phone_applications_crashes_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_APPLICATIONS_CRASHES"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/processed/features/{pid}/phone_applications_crashes.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
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files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
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@ -172,7 +172,7 @@ if isinstance(config["PHONE_APPLICATIONS_NOTIFICATIONS"]["PROVIDERS"], dict):
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files_to_compute.extend(expand("data/raw/{pid}/phone_applications_notifications_raw.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/raw/{pid}/phone_applications_notifications_with_datetime.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/raw/{pid}/phone_applications_notifications_with_datetime_with_categories.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_applications_notifications_features/phone_applications_notifications_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_APPLICATIONS_NOTIFICATIONS"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/interim/{pid}/phone_applications_notifications_features/phone_applications_notifications_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_APPLICATIONS_NOTIFICATIONS"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/processed/features/{pid}/phone_applications_notifications.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
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files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
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@ -182,7 +182,7 @@ if isinstance(config["PHONE_KEYBOARD"]["PROVIDERS"], dict):
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if config["PHONE_KEYBOARD"]["PROVIDERS"][provider]["COMPUTE"]:
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files_to_compute.extend(expand("data/raw/{pid}/phone_keyboard_raw.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/raw/{pid}/phone_keyboard_with_datetime.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_keyboard_features/phone_keyboard_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_KEYBOARD"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/interim/{pid}/phone_keyboard_features/phone_keyboard_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_KEYBOARD"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/processed/features/{pid}/phone_keyboard.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
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files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
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@ -192,7 +192,7 @@ if isinstance(config["PHONE_LOG"]["PROVIDERS"], dict):
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if config["PHONE_LOG"]["PROVIDERS"][provider]["COMPUTE"]:
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files_to_compute.extend(expand("data/raw/{pid}/phone_log_raw.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/raw/{pid}/phone_log_with_datetime.csv", pid=config["PIDS"]))
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||||
files_to_compute.extend(expand("data/interim/{pid}/phone_log_features/phone_log_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_LOG"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_log_features/phone_log_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_LOG"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_log.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -209,7 +209,7 @@ for provider in config["PHONE_LOCATIONS"]["PROVIDERS"].keys():
|
|||
files_to_compute.extend(expand("data/interim/{pid}/phone_locations_processed.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_locations_processed_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_locations_processed_with_datetime_with_home.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_locations_features/phone_locations_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_LOCATIONS"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_locations_features/phone_locations_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_LOCATIONS"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_locations.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -226,7 +226,7 @@ for provider in config["FITBIT_HEARTRATE_SUMMARY"]["PROVIDERS"].keys():
|
|||
if config["FITBIT_HEARTRATE_SUMMARY"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_heartrate_summary_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_heartrate_summary_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_heartrate_summary_features/fitbit_heartrate_summary_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["FITBIT_HEARTRATE_SUMMARY"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_heartrate_summary_features/fitbit_heartrate_summary_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["FITBIT_HEARTRATE_SUMMARY"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/fitbit_heartrate_summary.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -235,7 +235,7 @@ for provider in config["FITBIT_HEARTRATE_INTRADAY"]["PROVIDERS"].keys():
|
|||
if config["FITBIT_HEARTRATE_INTRADAY"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_heartrate_intraday_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_heartrate_intraday_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_heartrate_intraday_features/fitbit_heartrate_intraday_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["FITBIT_HEARTRATE_INTRADAY"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_heartrate_intraday_features/fitbit_heartrate_intraday_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["FITBIT_HEARTRATE_INTRADAY"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/fitbit_heartrate_intraday.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -244,7 +244,7 @@ for provider in config["FITBIT_SLEEP_SUMMARY"]["PROVIDERS"].keys():
|
|||
if config["FITBIT_SLEEP_SUMMARY"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_sleep_summary_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_sleep_summary_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_sleep_summary_features/fitbit_sleep_summary_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["FITBIT_SLEEP_SUMMARY"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_sleep_summary_features/fitbit_sleep_summary_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["FITBIT_SLEEP_SUMMARY"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/fitbit_sleep_summary.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -256,7 +256,7 @@ for provider in config["FITBIT_SLEEP_INTRADAY"]["PROVIDERS"].keys():
|
|||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_sleep_intraday_episodes.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_sleep_intraday_episodes_resampled.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_sleep_intraday_episodes_resampled_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_sleep_intraday_features/fitbit_sleep_intraday_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["FITBIT_SLEEP_INTRADAY"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_sleep_intraday_features/fitbit_sleep_intraday_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["FITBIT_SLEEP_INTRADAY"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/fitbit_sleep_intraday.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -265,7 +265,7 @@ for provider in config["FITBIT_STEPS_SUMMARY"]["PROVIDERS"].keys():
|
|||
if config["FITBIT_STEPS_SUMMARY"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_steps_summary_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_steps_summary_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_steps_summary_features/fitbit_steps_summary_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["FITBIT_STEPS_SUMMARY"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_steps_summary_features/fitbit_steps_summary_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["FITBIT_STEPS_SUMMARY"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/fitbit_steps_summary.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -274,7 +274,7 @@ for provider in config["FITBIT_STEPS_INTRADAY"]["PROVIDERS"].keys():
|
|||
if config["FITBIT_STEPS_INTRADAY"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_steps_intraday_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_steps_intraday_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_steps_intraday_features/fitbit_steps_intraday_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["FITBIT_STEPS_INTRADAY"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_steps_intraday_features/fitbit_steps_intraday_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["FITBIT_STEPS_INTRADAY"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/fitbit_steps_intraday.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -284,7 +284,7 @@ for provider in config["EMPATICA_ACCELEROMETER"]["PROVIDERS"].keys():
|
|||
if config["EMPATICA_ACCELEROMETER"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_accelerometer_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_accelerometer_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_accelerometer_features/empatica_accelerometer_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["EMPATICA_ACCELEROMETER"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_accelerometer_features/empatica_accelerometer_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["EMPATICA_ACCELEROMETER"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/empatica_accelerometer.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -293,7 +293,7 @@ for provider in config["EMPATICA_HEARTRATE"]["PROVIDERS"].keys():
|
|||
if config["EMPATICA_HEARTRATE"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_heartrate_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_heartrate_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_heartrate_features/empatica_heartrate_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["EMPATICA_HEARTRATE"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_heartrate_features/empatica_heartrate_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["EMPATICA_HEARTRATE"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/empatica_heartrate.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -303,7 +303,7 @@ for provider in config["EMPATICA_TEMPERATURE"]["PROVIDERS"].keys():
|
|||
if config["EMPATICA_TEMPERATURE"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_temperature_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_temperature_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_temperature_features/empatica_temperature_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["EMPATICA_TEMPERATURE"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_temperature_features/empatica_temperature_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["EMPATICA_TEMPERATURE"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/empatica_temperature.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -312,7 +312,7 @@ for provider in config["EMPATICA_ELECTRODERMAL_ACTIVITY"]["PROVIDERS"].keys():
|
|||
if config["EMPATICA_ELECTRODERMAL_ACTIVITY"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_electrodermal_activity_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_electrodermal_activity_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_electrodermal_activity_features/empatica_electrodermal_activity_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["EMPATICA_ELECTRODERMAL_ACTIVITY"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_electrodermal_activity_features/empatica_electrodermal_activity_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["EMPATICA_ELECTRODERMAL_ACTIVITY"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/empatica_electrodermal_activity.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -321,7 +321,7 @@ for provider in config["EMPATICA_BLOOD_VOLUME_PULSE"]["PROVIDERS"].keys():
|
|||
if config["EMPATICA_BLOOD_VOLUME_PULSE"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_blood_volume_pulse_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_blood_volume_pulse_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_blood_volume_pulse_features/empatica_blood_volume_pulse_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["EMPATICA_BLOOD_VOLUME_PULSE"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_blood_volume_pulse_features/empatica_blood_volume_pulse_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["EMPATICA_BLOOD_VOLUME_PULSE"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/empatica_blood_volume_pulse.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -330,7 +330,7 @@ for provider in config["EMPATICA_INTER_BEAT_INTERVAL"]["PROVIDERS"].keys():
|
|||
if config["EMPATICA_INTER_BEAT_INTERVAL"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_inter_beat_interval_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_inter_beat_interval_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_inter_beat_interval_features/empatica_inter_beat_interval_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["EMPATICA_INTER_BEAT_INTERVAL"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_inter_beat_interval_features/empatica_inter_beat_interval_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["EMPATICA_INTER_BEAT_INTERVAL"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/empatica_inter_beat_interval.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -340,7 +340,7 @@ if isinstance(config["EMPATICA_TAGS"]["PROVIDERS"], dict):
|
|||
if config["EMPATICA_TAGS"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_tags_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_tags_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_tags_features/empatica_tags_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["EMPATICA_TAGS"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_tags_features/empatica_tags_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["EMPATICA_TAGS"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/empatica_tags.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
|
|||
98
config.yaml
98
config.yaml
|
|
@ -67,8 +67,7 @@ PHONE_ACCELEROMETER:
|
|||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxmagnitude", "minmagnitude", "avgmagnitude", "medianmagnitude", "stdmagnitude"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_accelerometer
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_accelerometer/rapids/main.py
|
||||
|
||||
PANDA:
|
||||
COMPUTE: False
|
||||
|
|
@ -76,8 +75,7 @@ PHONE_ACCELEROMETER:
|
|||
FEATURES:
|
||||
exertional_activity_episode: ["sumduration", "maxduration", "minduration", "avgduration", "medianduration", "stdduration"]
|
||||
nonexertional_activity_episode: ["sumduration", "maxduration", "minduration", "avgduration", "medianduration", "stdduration"]
|
||||
SRC_FOLDER: "panda" # inside src/features/phone_accelerometer
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_accelerometer/panda/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-activity-recognition/
|
||||
PHONE_ACTIVITY_RECOGNITION:
|
||||
|
|
@ -93,8 +91,7 @@ PHONE_ACTIVITY_RECOGNITION:
|
|||
STATIONARY: ["still", "tilting"]
|
||||
MOBILE: ["on_foot", "walking", "running", "on_bicycle"]
|
||||
VEHICLE: ["in_vehicle"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_activity_recognition
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_activity_recognition/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-applications-crashes/
|
||||
PHONE_APPLICATIONS_CRASHES:
|
||||
|
|
@ -125,8 +122,7 @@ PHONE_APPLICATIONS_FOREGROUND:
|
|||
EXCLUDED_CATEGORIES: []
|
||||
EXCLUDED_APPS: ["com.fitbit.FitbitMobile", "com.aware.plugin.upmc.cancer"]
|
||||
FEATURES: ["count", "timeoffirstuse", "timeoflastuse", "frequencyentropy"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_applications_foreground
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_applications_foreground/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-applications-notifications/
|
||||
PHONE_APPLICATIONS_NOTIFICATIONS:
|
||||
|
|
@ -146,8 +142,7 @@ PHONE_BATTERY:
|
|||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["countdischarge", "sumdurationdischarge", "countcharge", "sumdurationcharge", "avgconsumptionrate", "maxconsumptionrate"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_battery
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_battery/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-bluetooth/
|
||||
PHONE_BLUETOOTH:
|
||||
|
|
@ -156,8 +151,8 @@ PHONE_BLUETOOTH:
|
|||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["countscans", "uniquedevices", "countscansmostuniquedevice"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_bluetooth
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_SCRIPT: src/features/phone_bluetooth/rapids/main.R
|
||||
|
||||
DORYAB:
|
||||
COMPUTE: False
|
||||
FEATURES:
|
||||
|
|
@ -173,8 +168,7 @@ PHONE_BLUETOOTH:
|
|||
DEVICES: ["countscans", "uniquedevices", "meanscans", "stdscans"]
|
||||
SCANS_MOST_FREQUENT_DEVICE: ["withinsegments", "acrosssegments", "acrossdataset"]
|
||||
SCANS_LEAST_FREQUENT_DEVICE: ["withinsegments", "acrosssegments", "acrossdataset"]
|
||||
SRC_FOLDER: "doryab" # inside src/features/phone_bluetooth
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_bluetooth/doryab/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-calls/
|
||||
PHONE_CALLS:
|
||||
|
|
@ -187,8 +181,7 @@ PHONE_CALLS:
|
|||
missed: [count, distinctcontacts, timefirstcall, timelastcall, countmostfrequentcontact]
|
||||
incoming: [count, distinctcontacts, meanduration, sumduration, minduration, maxduration, stdduration, modeduration, entropyduration, timefirstcall, timelastcall, countmostfrequentcontact]
|
||||
outgoing: [count, distinctcontacts, meanduration, sumduration, minduration, maxduration, stdduration, modeduration, entropyduration, timefirstcall, timelastcall, countmostfrequentcontact]
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_calls
|
||||
SRC_SCRIPT: src/features/phone_calls/rapids/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-conversation/
|
||||
PHONE_CONVERSATION:
|
||||
|
|
@ -206,8 +199,7 @@ PHONE_CONVERSATION:
|
|||
"unknownexpectedfraction","countconversation"]
|
||||
RECORDING_MINUTES: 1
|
||||
PAUSED_MINUTES : 3
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_conversation
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_conversation/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-data-yield/
|
||||
PHONE_DATA_YIELD:
|
||||
|
|
@ -217,8 +209,7 @@ PHONE_DATA_YIELD:
|
|||
COMPUTE: False
|
||||
FEATURES: [ratiovalidyieldedminutes, ratiovalidyieldedhours]
|
||||
MINUTE_RATIO_THRESHOLD_FOR_VALID_YIELDED_HOURS: 0.5 # 0 to 1, minimum percentage of valid minutes in an hour to be considered valid.
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_data_yield
|
||||
SRC_SCRIPT: src/features/phone_data_yield/rapids/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-keyboard/
|
||||
PHONE_KEYBOARD:
|
||||
|
|
@ -232,8 +223,7 @@ PHONE_LIGHT:
|
|||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["count", "maxlux", "minlux", "avglux", "medianlux", "stdlux"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_light
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_light/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-locations/
|
||||
PHONE_LOCATIONS:
|
||||
|
|
@ -261,8 +251,7 @@ PHONE_LOCATIONS:
|
|||
CLUSTER_ON: PARTICIPANT_DATASET # PARTICIPANT_DATASET,TIME_SEGMENT
|
||||
CLUSTERING_ALGORITHM: DBSCAN #DBSCAN,OPTICS
|
||||
RADIUS_FOR_HOME: 100
|
||||
SRC_FOLDER: "doryab" # inside src/features/phone_locations
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_locations/doryab/main.py
|
||||
|
||||
BARNETT:
|
||||
COMPUTE: False
|
||||
|
|
@ -270,8 +259,7 @@ PHONE_LOCATIONS:
|
|||
ACCURACY_LIMIT: 100 # meters, drops location coordinates with an accuracy higher than this. This number means there's a 68% probability the true location is within this radius
|
||||
IF_MULTIPLE_TIMEZONES: USE_MOST_COMMON
|
||||
MINUTES_DATA_USED: False # Use this for quality control purposes, how many minutes of data (location coordinates gruped by minute) were used to compute features
|
||||
SRC_FOLDER: "barnett" # inside src/features/phone_locations
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_SCRIPT: src/features/phone_locations/barnett/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-log/
|
||||
PHONE_LOG:
|
||||
|
|
@ -290,8 +278,7 @@ PHONE_MESSAGES:
|
|||
FEATURES:
|
||||
received: [count, distinctcontacts, timefirstmessage, timelastmessage, countmostfrequentcontact]
|
||||
sent: [count, distinctcontacts, timefirstmessage, timelastmessage, countmostfrequentcontact]
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_messages
|
||||
SRC_SCRIPT: src/features/phone_messages/rapids/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-screen/
|
||||
PHONE_SCREEN:
|
||||
|
|
@ -304,28 +291,25 @@ PHONE_SCREEN:
|
|||
IGNORE_EPISODES_LONGER_THAN: 0 # in minutes, set to 0 to disable
|
||||
FEATURES: ["countepisode", "sumduration", "maxduration", "minduration", "avgduration", "stdduration", "firstuseafter"] # "episodepersensedminutes" needs to be added later
|
||||
EPISODE_TYPES: ["unlock"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_screen
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_screen/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-wifi-connected/
|
||||
PHONE_WIFI_CONNECTED:
|
||||
CONTAINER: "sensor_wifi"
|
||||
CONTAINER: sensor_wifi
|
||||
PROVIDERS:
|
||||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["countscans", "uniquedevices", "countscansmostuniquedevice"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_wifi_connected
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_SCRIPT: src/features/phone_wifi_connected/rapids/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-wifi-visible/
|
||||
PHONE_WIFI_VISIBLE:
|
||||
CONTAINER: "wifi"
|
||||
CONTAINER: wifi
|
||||
PROVIDERS:
|
||||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["countscans", "uniquedevices", "countscansmostuniquedevice"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_wifi_visible
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_SCRIPT: src/features/phone_wifi_visible/rapids/main.R
|
||||
|
||||
|
||||
|
||||
|
|
@ -364,8 +348,7 @@ FITBIT_DATA_YIELD:
|
|||
COMPUTE: False
|
||||
FEATURES: [ratiovalidyieldedminutes, ratiovalidyieldedhours]
|
||||
MINUTE_RATIO_THRESHOLD_FOR_VALID_YIELDED_HOURS: 0.5 # 0 to 1, minimum percentage of valid minutes in an hour to be considered valid.
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_data_yield
|
||||
SRC_SCRIPT: src/features/fitbit_data_yield/rapids/main.R
|
||||
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-heartrate-summary/
|
||||
|
|
@ -375,8 +358,7 @@ FITBIT_HEARTRATE_SUMMARY:
|
|||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxrestinghr", "minrestinghr", "avgrestinghr", "medianrestinghr", "moderestinghr", "stdrestinghr", "diffmaxmoderestinghr", "diffminmoderestinghr", "entropyrestinghr"] # calories features' accuracy depend on the accuracy of the participants fitbit profile (e.g. height, weight) use these with care: ["sumcaloriesoutofrange", "maxcaloriesoutofrange", "mincaloriesoutofrange", "avgcaloriesoutofrange", "mediancaloriesoutofrange", "stdcaloriesoutofrange", "entropycaloriesoutofrange", "sumcaloriesfatburn", "maxcaloriesfatburn", "mincaloriesfatburn", "avgcaloriesfatburn", "mediancaloriesfatburn", "stdcaloriesfatburn", "entropycaloriesfatburn", "sumcaloriescardio", "maxcaloriescardio", "mincaloriescardio", "avgcaloriescardio", "mediancaloriescardio", "stdcaloriescardio", "entropycaloriescardio", "sumcaloriespeak", "maxcaloriespeak", "mincaloriespeak", "avgcaloriespeak", "mediancaloriespeak", "stdcaloriespeak", "entropycaloriespeak"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_heartrate_summary
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_heartrate_summary/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-heartrate-intraday/
|
||||
FITBIT_HEARTRATE_INTRADAY:
|
||||
|
|
@ -385,8 +367,7 @@ FITBIT_HEARTRATE_INTRADAY:
|
|||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxhr", "minhr", "avghr", "medianhr", "modehr", "stdhr", "diffmaxmodehr", "diffminmodehr", "entropyhr", "minutesonoutofrangezone", "minutesonfatburnzone", "minutesoncardiozone", "minutesonpeakzone"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_heartrate_intraday
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_heartrate_intraday/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-sleep-summary/
|
||||
FITBIT_SLEEP_SUMMARY:
|
||||
|
|
@ -396,8 +377,7 @@ FITBIT_SLEEP_SUMMARY:
|
|||
COMPUTE: False
|
||||
FEATURES: ["countepisode", "avgefficiency", "sumdurationafterwakeup", "sumdurationasleep", "sumdurationawake", "sumdurationtofallasleep", "sumdurationinbed", "avgdurationafterwakeup", "avgdurationasleep", "avgdurationawake", "avgdurationtofallasleep", "avgdurationinbed"]
|
||||
SLEEP_TYPES: ["main", "nap", "all"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_sleep_summary
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_sleep_summary/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-sleep-intraday/
|
||||
FITBIT_SLEEP_INTRADAY:
|
||||
|
|
@ -418,8 +398,7 @@ FITBIT_SLEEP_INTRADAY:
|
|||
SLEEP_TYPES: [main, nap]
|
||||
INCLUDE_SLEEP_LATER_THAN: 0 # a number ranged from 0 (midnight) to 1439 (23:59)
|
||||
REFERENCE_TIME: MIDNIGHT # chosen from "MIDNIGHT" and "START_OF_THE_SEGMENT"
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_sleep_intraday
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_sleep_intraday/rapids/main.py
|
||||
|
||||
PRICE:
|
||||
COMPUTE: False
|
||||
|
|
@ -432,8 +411,7 @@ FITBIT_SLEEP_INTRADAY:
|
|||
GROUP_EPISODES_WITHIN: # by default: today's 6pm to tomorrow's noon
|
||||
START_TIME: 1080 # number of minutes after the midnight (18:00) 18*60
|
||||
LENGTH: 1080 # in minutes (18 hours) 18*60
|
||||
SRC_FOLDER: "price" # inside src/features/fitbit_sleep_intraday
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_sleep_intraday/price/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-steps-summary/
|
||||
FITBIT_STEPS_SUMMARY:
|
||||
|
|
@ -442,8 +420,7 @@ FITBIT_STEPS_SUMMARY:
|
|||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxsumsteps", "minsumsteps", "avgsumsteps", "mediansumsteps", "stdsumsteps"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_steps_summary
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_steps_summary/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-steps-intraday/
|
||||
FITBIT_STEPS_INTRADAY:
|
||||
|
|
@ -457,8 +434,7 @@ FITBIT_STEPS_INTRADAY:
|
|||
ACTIVE_BOUT: ["countepisode", "sumduration", "maxduration", "minduration", "avgduration", "stdduration"]
|
||||
THRESHOLD_ACTIVE_BOUT: 10 # steps
|
||||
INCLUDE_ZERO_STEP_ROWS: False
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_steps_intraday
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_steps_intraday/rapids/main.py
|
||||
|
||||
########################################################################################################################
|
||||
# EMPATICA #
|
||||
|
|
@ -480,8 +456,7 @@ EMPATICA_ACCELEROMETER:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxmagnitude", "minmagnitude", "avgmagnitude", "medianmagnitude", "stdmagnitude"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_accelerometer
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_accelerometer/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-heartrate/
|
||||
EMPATICA_HEARTRATE:
|
||||
|
|
@ -490,8 +465,7 @@ EMPATICA_HEARTRATE:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxhr", "minhr", "avghr", "medianhr", "modehr", "stdhr", "diffmaxmodehr", "diffminmodehr", "entropyhr"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_heartrate
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_heartrate/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-temperature/
|
||||
EMPATICA_TEMPERATURE:
|
||||
|
|
@ -500,8 +474,7 @@ EMPATICA_TEMPERATURE:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxtemp", "mintemp", "avgtemp", "mediantemp", "modetemp", "stdtemp", "diffmaxmodetemp", "diffminmodetemp", "entropytemp"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_heartrate
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_temperature/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-electrodermal-activity/
|
||||
EMPATICA_ELECTRODERMAL_ACTIVITY:
|
||||
|
|
@ -510,8 +483,7 @@ EMPATICA_ELECTRODERMAL_ACTIVITY:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxeda", "mineda", "avgeda", "medianeda", "modeeda", "stdeda", "diffmaxmodeeda", "diffminmodeeda", "entropyeda"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_electrodermal_activity
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_electrodermal_activity/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-blood-volume-pulse/
|
||||
EMPATICA_BLOOD_VOLUME_PULSE:
|
||||
|
|
@ -520,8 +492,7 @@ EMPATICA_BLOOD_VOLUME_PULSE:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxbvp", "minbvp", "avgbvp", "medianbvp", "modebvp", "stdbvp", "diffmaxmodebvp", "diffminmodebvp", "entropybvp"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_blood_volume_pulse
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_blood_volume_pulse/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-inter-beat-interval/
|
||||
EMPATICA_INTER_BEAT_INTERVAL:
|
||||
|
|
@ -530,8 +501,7 @@ EMPATICA_INTER_BEAT_INTERVAL:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxibi", "minibi", "avgibi", "medianibi", "modeibi", "stdibi", "diffmaxmodeibi", "diffminmodeibi", "entropyibi"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/inter_beat_interval
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_inter_beat_interval/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-tags/
|
||||
EMPATICA_TAGS:
|
||||
|
|
|
|||
|
|
@ -8,6 +8,7 @@
|
|||
- Support to analyze data collected over [multiple time zones](../setup/configuration/#multiple-timezones)
|
||||
- Support for [sleep intraday features](../features/fitbit-sleep-intraday/) from the core team and also from the community (thanks to Stephen Price)
|
||||
- Users can comment on the documentation (powered by utterances).
|
||||
- `SCR_SCRIPT` and `SRC_LANGUAGE` are replaced by `SRC_SCRIPT`.
|
||||
- Add RAPIDS new logo
|
||||
- Move Citation and Minimal Example page to the Setup section
|
||||
- Add `config.yaml` validation schema and documentation. Now it's more difficult to modify the `config.yaml` file with invalid values.
|
||||
|
|
|
|||
|
|
@ -25,7 +25,7 @@ The schema has three main sections `required`, `definitions`, and `properties`.
|
|||
### definitions
|
||||
`definitions` lists key/values that are common to different `properties` so we can reuse them. You can define a key/value under `definitions` and use `$ref` to refer to it in any `property`.
|
||||
|
||||
For example, every sensor like `[PHONE_ACCELEROMETER]` has one or more providers like `RAPIDS` and `PANDA`, these providers have some common properties like the `COMPUTE` flag or the `SRC_FOLDER` string, therefore we define a common provider "template" that is used by every provider and extended with properties exclusive to each one of them. For example:
|
||||
For example, every sensor like `[PHONE_ACCELEROMETER]` has one or more providers like `RAPIDS` and `PANDA`, these providers have some common properties like the `COMPUTE` flag or the `SRC_SCRIPT` string. Therefore we define a shared provider "template" that is used by every provider and extended with properties exclusive to each one of them. For example:
|
||||
|
||||
=== "provider definition (template)"
|
||||
The `PROVIDER` definition will be used later on different `properties`.
|
||||
|
|
@ -33,21 +33,19 @@ For example, every sensor like `[PHONE_ACCELEROMETER]` has one or more providers
|
|||
```yaml
|
||||
PROVIDER:
|
||||
type: object
|
||||
required: [COMPUTE, SRC_FOLDER, SRC_LANGUAGE, FEATURES]
|
||||
required: [COMPUTE, SRC_SCRIPT, FEATURES]
|
||||
properties:
|
||||
COMPUTE:
|
||||
type: boolean
|
||||
FEATURES:
|
||||
type: [array, object]
|
||||
SRC_FOLDER:
|
||||
SRC_SCRIPT:
|
||||
type: string
|
||||
SRC_LANGUAGE:
|
||||
type: string
|
||||
enum: [python, r]
|
||||
pattern: "^.*\\.(py|R)$"
|
||||
```
|
||||
|
||||
=== "provider reusing and extending the template"
|
||||
Notice that in this example `RAPIDS` (a provider) is using and extending the `PROVIDER` template. The `FEATURES` key is overriding the `FEATURES` key from the `#/definitions/PROVIDER` template but is keeping the validation for `COMPUTE`, `SRC_FOLDER`, and `SRC_LANGUAGE`. For more details about reusing properties go to this [link](http://json-schema.org/understanding-json-schema/structuring.html#reuse)
|
||||
Notice that `RAPIDS` (a provider) uses and extends the `PROVIDER` template in this example. The `FEATURES` key is overriding the `FEATURES` key from the `#/definitions/PROVIDER` template but is keeping the validation for `COMPUTE`, and `SRC_SCRIPT`. For more details about reusing properties, go to this [link](http://json-schema.org/understanding-json-schema/structuring.html#reuse)
|
||||
|
||||
```yaml hl_lines="9 10"
|
||||
PHONE_ACCELEROMETER:
|
||||
|
|
@ -128,7 +126,7 @@ You can validate different aspects of each key/value in our `config.yaml` file:
|
|||
enum: ["received", "sent"]
|
||||
```
|
||||
=== "object"
|
||||
`PARENT` is an object that has two properties. `KID1` is one of those properties that is in turn another object that will reuse the `"#/definitions/PROVIDER"` `definition` **AND** also include (extend) two extra properties `GRAND_KID1` of type `array` and `GRAND_KID2` of type `number`. `KID2` is another property of `PARENT` of type `boolean`.
|
||||
`PARENT` is an object that has two properties. `KID1` is one of those properties that are, in turn, another object that will reuse the `"#/definitions/PROVIDER"` `definition` **AND** also include (extend) two extra properties `GRAND_KID1` of type `array` and `GRAND_KID2` of type `number`. `KID2` is another property of `PARENT` of type `boolean`.
|
||||
|
||||
The schema validation looks like this
|
||||
```yaml
|
||||
|
|
@ -155,8 +153,7 @@ You can validate different aspects of each key/value in our `config.yaml` file:
|
|||
# These four come from the `PROVIDER` definition (template)
|
||||
COMPUTE: False
|
||||
FEATURES: [x, y] # an array
|
||||
SRC_FOLDER: "any string"
|
||||
SRC_LANGUAGE: "any string"
|
||||
SRC_SCRIPT: "a path to a py or R script"
|
||||
|
||||
# This two come from the extension
|
||||
GRAND_KID1: [a, b] # an array
|
||||
|
|
|
|||
|
|
@ -65,7 +65,7 @@ As a tutorial, we will add a new provider for `PHONE_ACCELEROMETER` called `VEGA
|
|||
In this step, you need to add your provider configuration section under the relevant sensor in `config.yaml`. See our example for our tutorial's `VEGA` provider for `PHONE_ACCELEROMETER`:
|
||||
|
||||
??? example "Example configuration for a new accelerometer provider `VEGA`"
|
||||
```yaml hl_lines="12 13 14 15 16 17"
|
||||
```yaml hl_lines="12 13 14 15 16"
|
||||
PHONE_ACCELEROMETER:
|
||||
CONTAINER: accelerometer
|
||||
PROVIDERS:
|
||||
|
|
@ -81,8 +81,7 @@ In this step, you need to add your provider configuration section under the rele
|
|||
COMPUTE: False
|
||||
FEATURES: ["feature1", "feature2", "feature3"]
|
||||
MY_PARAMTER: a_string
|
||||
SRC_FOLDER: "vega"
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_accelerometer/vega/main.py
|
||||
|
||||
```
|
||||
|
||||
|
|
@ -91,12 +90,11 @@ In this step, you need to add your provider configuration section under the rele
|
|||
|`[COMPUTE]`| Flag to activate/deactivate your provider
|
||||
|`[FEATURES]`| List of features your provider supports. Your provider code should only return the features on this list
|
||||
|`[MY_PARAMTER]`| An arbitrary parameter that our example provider `VEGA` needs. This can be a boolean, integer, float, string, or an array of any of such types.
|
||||
|`[SRC_LANGUAGE]`| The programming language of your provider script, it can be `python` or `r`, in our example `python`
|
||||
|`[SRC_FOLDER]`| The name of your provider in lower case, in our example `vega` (this will be the name of your folder in the next step)
|
||||
|`[SRC_SCRIPT]`| The relative path from RAPIDS' root folder to an script that computes the features for this provider. It can be implemented in R or Python.
|
||||
|
||||
### Create a feature provider script
|
||||
|
||||
Create your feature Python or R script called `main.py` or `main.R` in the correct folder, `src/feature/[sensorname]/[providername]/`. RAPIDS automatically loads and executes it based on the config section you added in the last step. For our example, this script is:
|
||||
Create your feature Python or R script called `main.py` or `main.R` in the correct folder, `src/feature/[sensorname]/[providername]/`. RAPIDS automatically loads and executes it based on the config key `[SRC_SCRIPT]` you added in the last step. For our example, this script is:
|
||||
```bash
|
||||
src/feature/phone_accelerometer/vega/main.py
|
||||
```
|
||||
|
|
|
|||
|
|
@ -23,8 +23,7 @@ PHONE_ACCELEROMETER: # (1)
|
|||
COMPUTE: False # (4)
|
||||
FEATURES: ["maxmagnitude", "minmagnitude", "avgmagnitude", "medianmagnitude", "stdmagnitude"]
|
||||
|
||||
SRC_FOLDER: "rapids"
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_accelerometer/rapids/main.py
|
||||
|
||||
PANDA:
|
||||
COMPUTE: False
|
||||
|
|
@ -33,8 +32,8 @@ PHONE_ACCELEROMETER: # (1)
|
|||
exertional_activity_episode: ["sumduration", "maxduration", "minduration", "avgduration", "medianduration", "stdduration"]
|
||||
nonexertional_activity_episode: ["sumduration", "maxduration", "minduration", "avgduration", "medianduration", "stdduration"]
|
||||
|
||||
SRC_FOLDER: "panda"
|
||||
SRC_LANGUAGE: "python" # (6)
|
||||
# (6)
|
||||
SRC_SCRIPT: src/features/phone_accelerometer/panda/main.py
|
||||
```
|
||||
|
||||
--8<--- "docs/snippets/feature_introduction_example.md"
|
||||
|
|
|
|||
|
|
@ -58,6 +58,10 @@ The most relevant changes to RAPIDS that you need to know about are:
|
|||
```sql
|
||||
SELECT device_id, device_id as fitbit_id, CONCAT("p", _id) as empatica_id, CONCAT("p", _id) as pid, if(brand = "iPhone", "ios", "android") as platform, CONCAT("p", _id) as label, DATE_FORMAT(FROM_UNIXTIME((timestamp/1000)- 86400), "%Y-%m-%d") as start_date, CURRENT_DATE as end_date from aware_device order by _id;
|
||||
```
|
||||
??? danger "`SCR_SCRIPT` and `SRC_LANGUAGE` are replaced by `SRC_SCRIPT`"
|
||||
The attributes `SCR_SCRIPT` and `SRC_LANGUAGE` of every sensor `PROVIDER` are replaced by `SRC_SCRIPT`. `SRC_SCRIPT` is a relative path from the RAPIDS root folder to that provider's feature script. We did this to simplify and clarify where the features scripts are stored.
|
||||
|
||||
There are no actions to take unless you created your own feature provider; update it with your feature script path.
|
||||
## Migrating from RAPIDS beta
|
||||
|
||||
If you were relying on the [old docs](https://rapidspitt.readthedocs.io/en/latest/) and the most recent version of RAPIDS you are working with is from or before [Oct 13, 2020](https://github.com/carissalow/rapids/commit/640890c7b49492d150accff5c87b1eb25bd97a49) you are using the beta version of RAPIDS.
|
||||
|
|
|
|||
|
|
@ -38,4 +38,6 @@
|
|||
|
||||
6. **`PROVIDER` script**
|
||||
|
||||
Each `PROVIDER` has a `SRC_FOLDER` and `SRC_LANGUAGE` that point to the script implementing the features of this `PROVIDER`.
|
||||
Each `PROVIDER` has a `SRC_SCRIPT` that points to the script implementing its behavioral features.
|
||||
|
||||
It has to be a relative path from RAPIDS' root folder and the script's parent folder should be named after the provider, e.g. `panda`.
|
||||
|
|
@ -20,14 +20,14 @@ for provider in config["PHONE_DATA_YIELD"]["PROVIDERS"].keys():
|
|||
if not (set(config["PHONE_DATA_YIELD"]["SENSORS"]) <= set(allowed_phone_sensors)):
|
||||
raise ValueError('\nInvalid sensor(s) for PHONE_DATA_YIELD. config["PHONE_DATA_YIELD"]["SENSORS"] can have '
|
||||
'one or more of the following phone sensors: {}.\nInstead you provided "{}".\n'
|
||||
'Keep in mind that the sensors\' TABLE attribute must point to a valid database table'\
|
||||
'Keep in mind that the sensors\' CONTAINER attribute must point to a valid database table or file'\
|
||||
.format(', '.join(allowed_phone_sensors),
|
||||
', '.join(set(config["PHONE_DATA_YIELD"]["SENSORS"]) - set(allowed_phone_sensors))))
|
||||
|
||||
files_to_compute.extend(expand("data/raw/{pid}/{sensor}_raw.csv", pid=config["PIDS"], sensor=map(str.lower, config["PHONE_DATA_YIELD"]["SENSORS"])))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_yielded_timestamps.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_yielded_timestamps_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_data_yield_features/phone_data_yield_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_DATA_YIELD"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_data_yield_features/phone_data_yield_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_DATA_YIELD"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_data_yield.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -36,7 +36,7 @@ for provider in config["PHONE_MESSAGES"]["PROVIDERS"].keys():
|
|||
if config["PHONE_MESSAGES"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_messages_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_messages_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_messages_features/phone_messages_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_MESSAGES"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_messages_features/phone_messages_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_MESSAGES"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_messages.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -45,7 +45,7 @@ for provider in config["PHONE_CALLS"]["PROVIDERS"].keys():
|
|||
if config["PHONE_CALLS"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_calls_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_calls_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_calls_features/phone_calls_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_CALLS"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_calls_features/phone_calls_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_CALLS"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_calls.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -54,7 +54,7 @@ for provider in config["PHONE_BLUETOOTH"]["PROVIDERS"].keys():
|
|||
if config["PHONE_BLUETOOTH"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_bluetooth_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_bluetooth_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_bluetooth_features/phone_bluetooth_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_BLUETOOTH"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_bluetooth_features/phone_bluetooth_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_BLUETOOTH"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_bluetooth.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -66,7 +66,7 @@ for provider in config["PHONE_ACTIVITY_RECOGNITION"]["PROVIDERS"].keys():
|
|||
files_to_compute.extend(expand("data/interim/{pid}/phone_activity_recognition_episodes.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_activity_recognition_episodes_resampled.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_activity_recognition_episodes_resampled_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_activity_recognition_features/phone_activity_recognition_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_ACTIVITY_RECOGNITION"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_activity_recognition_features/phone_activity_recognition_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_ACTIVITY_RECOGNITION"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_activity_recognition.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -77,7 +77,7 @@ for provider in config["PHONE_BATTERY"]["PROVIDERS"].keys():
|
|||
files_to_compute.extend(expand("data/interim/{pid}/phone_battery_episodes.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_battery_episodes_resampled.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_battery_episodes_resampled_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_battery_features/phone_battery_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_BATTERY"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_battery_features/phone_battery_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_BATTERY"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_battery.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -93,7 +93,7 @@ for provider in config["PHONE_SCREEN"]["PROVIDERS"].keys():
|
|||
files_to_compute.extend(expand("data/interim/{pid}/phone_screen_episodes.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_screen_episodes_resampled.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_screen_episodes_resampled_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_screen_features/phone_screen_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_SCREEN"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_screen_features/phone_screen_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_SCREEN"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_screen.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -102,7 +102,7 @@ for provider in config["PHONE_LIGHT"]["PROVIDERS"].keys():
|
|||
if config["PHONE_LIGHT"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_light_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_light_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_light_features/phone_light_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_LIGHT"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_light_features/phone_light_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_LIGHT"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_light.csv", pid=config["PIDS"],))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -111,7 +111,7 @@ for provider in config["PHONE_ACCELEROMETER"]["PROVIDERS"].keys():
|
|||
if config["PHONE_ACCELEROMETER"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_accelerometer_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_accelerometer_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_accelerometer_features/phone_accelerometer_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_ACCELEROMETER"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_accelerometer_features/phone_accelerometer_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_ACCELEROMETER"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_accelerometer.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -121,7 +121,7 @@ for provider in config["PHONE_APPLICATIONS_FOREGROUND"]["PROVIDERS"].keys():
|
|||
files_to_compute.extend(expand("data/raw/{pid}/phone_applications_foreground_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_applications_foreground_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_applications_foreground_with_datetime_with_categories.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_applications_foreground_features/phone_applications_foreground_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_APPLICATIONS_FOREGROUND"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_applications_foreground_features/phone_applications_foreground_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_APPLICATIONS_FOREGROUND"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_applications_foreground.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -130,7 +130,7 @@ for provider in config["PHONE_WIFI_VISIBLE"]["PROVIDERS"].keys():
|
|||
if config["PHONE_WIFI_VISIBLE"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_wifi_visible_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_wifi_visible_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_wifi_visible_features/phone_wifi_visible_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_WIFI_VISIBLE"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_wifi_visible_features/phone_wifi_visible_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_WIFI_VISIBLE"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_wifi_visible.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -139,7 +139,7 @@ for provider in config["PHONE_WIFI_CONNECTED"]["PROVIDERS"].keys():
|
|||
if config["PHONE_WIFI_CONNECTED"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_wifi_connected_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_wifi_connected_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_wifi_connected_features/phone_wifi_connected_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_WIFI_CONNECTED"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_wifi_connected_features/phone_wifi_connected_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_WIFI_CONNECTED"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_wifi_connected.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -148,7 +148,7 @@ for provider in config["PHONE_CONVERSATION"]["PROVIDERS"].keys():
|
|||
if config["PHONE_CONVERSATION"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_conversation_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_conversation_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_conversation_features/phone_conversation_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_CONVERSATION"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_conversation_features/phone_conversation_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_CONVERSATION"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_conversation.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -160,7 +160,7 @@ if isinstance(config["PHONE_APPLICATIONS_CRASHES"]["PROVIDERS"], dict):
|
|||
files_to_compute.extend(expand("data/raw/{pid}/phone_applications_crashes_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_applications_crashes_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_applications_crashes_with_datetime_with_categories.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_applications_crashes_features/phone_applications_crashes_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_APPLICATIONS_CRASHES"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_applications_crashes_features/phone_applications_crashes_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_APPLICATIONS_CRASHES"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_applications_crashes.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -171,7 +171,7 @@ if isinstance(config["PHONE_APPLICATIONS_NOTIFICATIONS"]["PROVIDERS"], dict):
|
|||
files_to_compute.extend(expand("data/raw/{pid}/phone_applications_notifications_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_applications_notifications_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_applications_notifications_with_datetime_with_categories.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_applications_notifications_features/phone_applications_notifications_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_APPLICATIONS_NOTIFICATIONS"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_applications_notifications_features/phone_applications_notifications_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_APPLICATIONS_NOTIFICATIONS"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_applications_notifications.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -181,7 +181,7 @@ if isinstance(config["PHONE_KEYBOARD"]["PROVIDERS"], dict):
|
|||
if config["PHONE_KEYBOARD"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_keyboard_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_keyboard_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_keyboard_features/phone_keyboard_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_KEYBOARD"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_keyboard_features/phone_keyboard_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_KEYBOARD"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_keyboard.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -191,7 +191,7 @@ if isinstance(config["PHONE_LOG"]["PROVIDERS"], dict):
|
|||
if config["PHONE_LOG"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_log_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/phone_log_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_log_features/phone_log_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_LOG"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_log_features/phone_log_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_LOG"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_log.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -208,7 +208,7 @@ for provider in config["PHONE_LOCATIONS"]["PROVIDERS"].keys():
|
|||
files_to_compute.extend(expand("data/interim/{pid}/phone_locations_processed.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_locations_processed_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_locations_processed_with_datetime_with_home.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_locations_features/phone_locations_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_LOCATIONS"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/phone_locations_features/phone_locations_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["PHONE_LOCATIONS"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/phone_locations.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -225,7 +225,7 @@ for provider in config["FITBIT_HEARTRATE_SUMMARY"]["PROVIDERS"].keys():
|
|||
if config["FITBIT_HEARTRATE_SUMMARY"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_heartrate_summary_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_heartrate_summary_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_heartrate_summary_features/fitbit_heartrate_summary_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["FITBIT_HEARTRATE_SUMMARY"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_heartrate_summary_features/fitbit_heartrate_summary_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["FITBIT_HEARTRATE_SUMMARY"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/fitbit_heartrate_summary.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -234,7 +234,7 @@ for provider in config["FITBIT_HEARTRATE_INTRADAY"]["PROVIDERS"].keys():
|
|||
if config["FITBIT_HEARTRATE_INTRADAY"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_heartrate_intraday_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_heartrate_intraday_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_heartrate_intraday_features/fitbit_heartrate_intraday_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["FITBIT_HEARTRATE_INTRADAY"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_heartrate_intraday_features/fitbit_heartrate_intraday_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["FITBIT_HEARTRATE_INTRADAY"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/fitbit_heartrate_intraday.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -243,7 +243,7 @@ for provider in config["FITBIT_SLEEP_SUMMARY"]["PROVIDERS"].keys():
|
|||
if config["FITBIT_SLEEP_SUMMARY"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_sleep_summary_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_sleep_summary_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_sleep_summary_features/fitbit_sleep_summary_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["FITBIT_SLEEP_SUMMARY"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_sleep_summary_features/fitbit_sleep_summary_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["FITBIT_SLEEP_SUMMARY"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/fitbit_sleep_summary.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -255,7 +255,7 @@ for provider in config["FITBIT_SLEEP_INTRADAY"]["PROVIDERS"].keys():
|
|||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_sleep_intraday_episodes.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_sleep_intraday_episodes_resampled.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_sleep_intraday_episodes_resampled_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_sleep_intraday_features/fitbit_sleep_intraday_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["FITBIT_SLEEP_INTRADAY"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_sleep_intraday_features/fitbit_sleep_intraday_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["FITBIT_SLEEP_INTRADAY"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/fitbit_sleep_intraday.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -264,7 +264,7 @@ for provider in config["FITBIT_STEPS_SUMMARY"]["PROVIDERS"].keys():
|
|||
if config["FITBIT_STEPS_SUMMARY"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_steps_summary_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_steps_summary_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_steps_summary_features/fitbit_steps_summary_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["FITBIT_STEPS_SUMMARY"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_steps_summary_features/fitbit_steps_summary_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["FITBIT_STEPS_SUMMARY"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/fitbit_steps_summary.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -273,7 +273,7 @@ for provider in config["FITBIT_STEPS_INTRADAY"]["PROVIDERS"].keys():
|
|||
if config["FITBIT_STEPS_INTRADAY"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_steps_intraday_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/fitbit_steps_intraday_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_steps_intraday_features/fitbit_steps_intraday_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["FITBIT_STEPS_INTRADAY"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/fitbit_steps_intraday_features/fitbit_steps_intraday_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["FITBIT_STEPS_INTRADAY"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/fitbit_steps_intraday.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -283,7 +283,7 @@ for provider in config["EMPATICA_ACCELEROMETER"]["PROVIDERS"].keys():
|
|||
if config["EMPATICA_ACCELEROMETER"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_accelerometer_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_accelerometer_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_accelerometer_features/empatica_accelerometer_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["EMPATICA_ACCELEROMETER"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_accelerometer_features/empatica_accelerometer_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["EMPATICA_ACCELEROMETER"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/empatica_accelerometer.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -292,7 +292,7 @@ for provider in config["EMPATICA_HEARTRATE"]["PROVIDERS"].keys():
|
|||
if config["EMPATICA_HEARTRATE"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_heartrate_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_heartrate_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_heartrate_features/empatica_heartrate_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["EMPATICA_HEARTRATE"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_heartrate_features/empatica_heartrate_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["EMPATICA_HEARTRATE"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/empatica_heartrate.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -302,7 +302,7 @@ for provider in config["EMPATICA_TEMPERATURE"]["PROVIDERS"].keys():
|
|||
if config["EMPATICA_TEMPERATURE"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_temperature_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_temperature_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_temperature_features/empatica_temperature_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["EMPATICA_TEMPERATURE"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_temperature_features/empatica_temperature_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["EMPATICA_TEMPERATURE"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/empatica_temperature.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -311,7 +311,7 @@ for provider in config["EMPATICA_ELECTRODERMAL_ACTIVITY"]["PROVIDERS"].keys():
|
|||
if config["EMPATICA_ELECTRODERMAL_ACTIVITY"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_electrodermal_activity_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_electrodermal_activity_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_electrodermal_activity_features/empatica_electrodermal_activity_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["EMPATICA_ELECTRODERMAL_ACTIVITY"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_electrodermal_activity_features/empatica_electrodermal_activity_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["EMPATICA_ELECTRODERMAL_ACTIVITY"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/empatica_electrodermal_activity.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -320,7 +320,7 @@ for provider in config["EMPATICA_BLOOD_VOLUME_PULSE"]["PROVIDERS"].keys():
|
|||
if config["EMPATICA_BLOOD_VOLUME_PULSE"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_blood_volume_pulse_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_blood_volume_pulse_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_blood_volume_pulse_features/empatica_blood_volume_pulse_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["EMPATICA_BLOOD_VOLUME_PULSE"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_blood_volume_pulse_features/empatica_blood_volume_pulse_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["EMPATICA_BLOOD_VOLUME_PULSE"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/empatica_blood_volume_pulse.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -329,7 +329,7 @@ for provider in config["EMPATICA_INTER_BEAT_INTERVAL"]["PROVIDERS"].keys():
|
|||
if config["EMPATICA_INTER_BEAT_INTERVAL"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_inter_beat_interval_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_inter_beat_interval_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_inter_beat_interval_features/empatica_inter_beat_interval_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["EMPATICA_INTER_BEAT_INTERVAL"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_inter_beat_interval_features/empatica_inter_beat_interval_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["EMPATICA_INTER_BEAT_INTERVAL"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/empatica_inter_beat_interval.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
@ -339,7 +339,7 @@ if isinstance(config["EMPATICA_TAGS"]["PROVIDERS"], dict):
|
|||
if config["EMPATICA_TAGS"]["PROVIDERS"][provider]["COMPUTE"]:
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_tags_raw.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/raw/{pid}/empatica_tags_with_datetime.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_tags_features/empatica_tags_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["EMPATICA_TAGS"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/interim/{pid}/empatica_tags_features/empatica_tags_{language}_{provider_key}.csv", pid=config["PIDS"], language=get_script_language(config["EMPATICA_TAGS"]["PROVIDERS"][provider]["SRC_SCRIPT"]), provider_key=provider.lower()))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/empatica_tags.csv", pid=config["PIDS"]))
|
||||
files_to_compute.extend(expand("data/processed/features/{pid}/all_sensor_features.csv", pid=config["PIDS"]))
|
||||
files_to_compute.append("data/processed/features/all_participants/all_sensor_features.csv")
|
||||
|
|
|
|||
|
|
@ -44,7 +44,7 @@ TIMEZONE:
|
|||
# PHONE #
|
||||
########################################################################################################################
|
||||
|
||||
# See https://www.rapids.science/latest/setup/configuration/#device-data-source-configuration
|
||||
# See https://www.rapids.science/latest/setup/configuration/#data-stream-configuration
|
||||
PHONE_DATA_STREAMS:
|
||||
USE: aware_csv
|
||||
|
||||
|
|
@ -54,6 +54,10 @@ PHONE_DATA_STREAMS:
|
|||
|
||||
aware_csv:
|
||||
FOLDER: data/external/example_workflow
|
||||
|
||||
aware_influxdb:
|
||||
DATABASE_GROUP: MY_GROUP
|
||||
|
||||
# Sensors ------
|
||||
|
||||
# https://www.rapids.science/latest/features/phone-accelerometer/
|
||||
|
|
@ -63,8 +67,7 @@ PHONE_ACCELEROMETER:
|
|||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxmagnitude", "minmagnitude", "avgmagnitude", "medianmagnitude", "stdmagnitude"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_accelerometer
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_accelerometer/rapids/main.py
|
||||
|
||||
PANDA:
|
||||
COMPUTE: False
|
||||
|
|
@ -72,8 +75,7 @@ PHONE_ACCELEROMETER:
|
|||
FEATURES:
|
||||
exertional_activity_episode: ["sumduration", "maxduration", "minduration", "avgduration", "medianduration", "stdduration"]
|
||||
nonexertional_activity_episode: ["sumduration", "maxduration", "minduration", "avgduration", "medianduration", "stdduration"]
|
||||
SRC_FOLDER: "panda" # inside src/features/phone_accelerometer
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_accelerometer/panda/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-activity-recognition/
|
||||
PHONE_ACTIVITY_RECOGNITION:
|
||||
|
|
@ -89,8 +91,7 @@ PHONE_ACTIVITY_RECOGNITION:
|
|||
STATIONARY: ["still", "tilting"]
|
||||
MOBILE: ["on_foot", "walking", "running", "on_bicycle"]
|
||||
VEHICLE: ["in_vehicle"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_activity_recognition
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_activity_recognition/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-applications-crashes/
|
||||
PHONE_APPLICATIONS_CRASHES:
|
||||
|
|
@ -121,8 +122,7 @@ PHONE_APPLICATIONS_FOREGROUND:
|
|||
EXCLUDED_CATEGORIES: ["system_apps"]
|
||||
EXCLUDED_APPS: ["com.fitbit.FitbitMobile", "com.aware.plugin.upmc.cancer"]
|
||||
FEATURES: ["count", "timeoffirstuse", "timeoflastuse", "frequencyentropy"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_applications_foreground
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_applications_foreground/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-applications-notifications/
|
||||
PHONE_APPLICATIONS_NOTIFICATIONS:
|
||||
|
|
@ -142,8 +142,7 @@ PHONE_BATTERY:
|
|||
RAPIDS:
|
||||
COMPUTE: True
|
||||
FEATURES: ["countdischarge", "sumdurationdischarge", "countcharge", "sumdurationcharge", "avgconsumptionrate", "maxconsumptionrate"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_battery
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_battery/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-bluetooth/
|
||||
PHONE_BLUETOOTH:
|
||||
|
|
@ -152,8 +151,8 @@ PHONE_BLUETOOTH:
|
|||
RAPIDS:
|
||||
COMPUTE: True
|
||||
FEATURES: ["countscans", "uniquedevices", "countscansmostuniquedevice"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_bluetooth
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_SCRIPT: src/features/phone_bluetooth/rapids/main.R
|
||||
|
||||
DORYAB:
|
||||
COMPUTE: False
|
||||
FEATURES:
|
||||
|
|
@ -169,8 +168,7 @@ PHONE_BLUETOOTH:
|
|||
DEVICES: ["countscans", "uniquedevices", "meanscans", "stdscans"]
|
||||
SCANS_MOST_FREQUENT_DEVICE: ["withinsegments", "acrosssegments", "acrossdataset"]
|
||||
SCANS_LEAST_FREQUENT_DEVICE: ["withinsegments", "acrosssegments", "acrossdataset"]
|
||||
SRC_FOLDER: "doryab" # inside src/features/phone_bluetooth
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_bluetooth/doryab/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-calls/
|
||||
PHONE_CALLS:
|
||||
|
|
@ -183,8 +181,7 @@ PHONE_CALLS:
|
|||
missed: [count, distinctcontacts, timefirstcall, timelastcall, countmostfrequentcontact]
|
||||
incoming: [count, distinctcontacts, meanduration, sumduration, minduration, maxduration, stdduration, modeduration, entropyduration, timefirstcall, timelastcall, countmostfrequentcontact]
|
||||
outgoing: [count, distinctcontacts, meanduration, sumduration, minduration, maxduration, stdduration, modeduration, entropyduration, timefirstcall, timelastcall, countmostfrequentcontact]
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_calls
|
||||
SRC_SCRIPT: src/features/phone_calls/rapids/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-conversation/
|
||||
PHONE_CONVERSATION:
|
||||
|
|
@ -202,8 +199,7 @@ PHONE_CONVERSATION:
|
|||
"unknownexpectedfraction","countconversation"]
|
||||
RECORDING_MINUTES: 1
|
||||
PAUSED_MINUTES : 3
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_conversation
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_conversation/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-data-yield/
|
||||
PHONE_DATA_YIELD:
|
||||
|
|
@ -213,8 +209,7 @@ PHONE_DATA_YIELD:
|
|||
COMPUTE: True
|
||||
FEATURES: [ratiovalidyieldedminutes, ratiovalidyieldedhours]
|
||||
MINUTE_RATIO_THRESHOLD_FOR_VALID_YIELDED_HOURS: 0.5 # 0 to 1, minimum percentage of valid minutes in an hour to be considered valid.
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_data_yield
|
||||
SRC_SCRIPT: src/features/phone_data_yield/rapids/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-keyboard/
|
||||
PHONE_KEYBOARD:
|
||||
|
|
@ -228,8 +223,7 @@ PHONE_LIGHT:
|
|||
RAPIDS:
|
||||
COMPUTE: True
|
||||
FEATURES: ["count", "maxlux", "minlux", "avglux", "medianlux", "stdlux"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_light
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_light/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-locations/
|
||||
PHONE_LOCATIONS:
|
||||
|
|
@ -257,8 +251,7 @@ PHONE_LOCATIONS:
|
|||
CLUSTER_ON: PARTICIPANT_DATASET # PARTICIPANT_DATASET,TIME_SEGMENT
|
||||
CLUSTERING_ALGORITHM: DBSCAN #DBSCAN,OPTICS
|
||||
RADIUS_FOR_HOME: 100
|
||||
SRC_FOLDER: "doryab" # inside src/features/phone_locations
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_locations/doryab/main.py
|
||||
|
||||
BARNETT:
|
||||
COMPUTE: False
|
||||
|
|
@ -266,8 +259,7 @@ PHONE_LOCATIONS:
|
|||
ACCURACY_LIMIT: 51 # meters, drops location coordinates with an accuracy higher than this. This number means there's a 68% probability the true location is within this radius
|
||||
IF_MULTIPLE_TIMEZONES: USE_MOST_COMMON
|
||||
MINUTES_DATA_USED: False # Use this for quality control purposes, how many minutes of data (location coordinates gruped by minute) were used to compute features
|
||||
SRC_FOLDER: "barnett" # inside src/features/phone_locations
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_SCRIPT: src/features/phone_locations/barnett/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-log/
|
||||
PHONE_LOG:
|
||||
|
|
@ -286,8 +278,7 @@ PHONE_MESSAGES:
|
|||
FEATURES:
|
||||
received: [count, distinctcontacts, timefirstmessage, timelastmessage, countmostfrequentcontact]
|
||||
sent: [count, distinctcontacts, timefirstmessage, timelastmessage, countmostfrequentcontact]
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_messages
|
||||
SRC_SCRIPT: src/features/phone_messages/rapids/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-screen/
|
||||
PHONE_SCREEN:
|
||||
|
|
@ -300,8 +291,7 @@ PHONE_SCREEN:
|
|||
IGNORE_EPISODES_LONGER_THAN: 0 # in minutes, set to 0 to disable
|
||||
FEATURES: ["countepisode", "sumduration", "maxduration", "minduration", "avgduration", "stdduration", "firstuseafter"] # "episodepersensedminutes" needs to be added later
|
||||
EPISODE_TYPES: ["unlock"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_screen
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_screen/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-wifi-connected/
|
||||
PHONE_WIFI_CONNECTED:
|
||||
|
|
@ -310,8 +300,7 @@ PHONE_WIFI_CONNECTED:
|
|||
RAPIDS:
|
||||
COMPUTE: True
|
||||
FEATURES: ["countscans", "uniquedevices", "countscansmostuniquedevice"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_wifi_connected
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_SCRIPT: src/features/phone_wifi_connected/rapids/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-wifi-visible/
|
||||
PHONE_WIFI_VISIBLE:
|
||||
|
|
@ -320,8 +309,7 @@ PHONE_WIFI_VISIBLE:
|
|||
RAPIDS:
|
||||
COMPUTE: True
|
||||
FEATURES: ["countscans", "uniquedevices", "countscansmostuniquedevice"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_wifi_visible
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_SCRIPT: src/features/phone_wifi_visible/rapids/main.R
|
||||
|
||||
|
||||
|
||||
|
|
@ -329,7 +317,7 @@ PHONE_WIFI_VISIBLE:
|
|||
# FITBIT #
|
||||
########################################################################################################################
|
||||
|
||||
# See https://www.rapids.science/latest/setup/configuration/#device-data-source-configuration
|
||||
# See https://www.rapids.science/latest/setup/configuration/#data-stream-configuration
|
||||
FITBIT_DATA_STREAMS:
|
||||
USE: fitbitjson_csv
|
||||
|
||||
|
|
@ -360,8 +348,7 @@ FITBIT_DATA_YIELD:
|
|||
COMPUTE: False
|
||||
FEATURES: [ratiovalidyieldedminutes, ratiovalidyieldedhours]
|
||||
MINUTE_RATIO_THRESHOLD_FOR_VALID_YIELDED_HOURS: 0.5 # 0 to 1, minimum percentage of valid minutes in an hour to be considered valid.
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_data_yield
|
||||
SRC_SCRIPT: src/features/fitbit_data_yield/rapids/main.R
|
||||
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-heartrate-summary/
|
||||
|
|
@ -371,8 +358,7 @@ FITBIT_HEARTRATE_SUMMARY:
|
|||
RAPIDS:
|
||||
COMPUTE: True
|
||||
FEATURES: ["maxrestinghr", "minrestinghr", "avgrestinghr", "medianrestinghr", "moderestinghr", "stdrestinghr", "diffmaxmoderestinghr", "diffminmoderestinghr", "entropyrestinghr"] # calories features' accuracy depend on the accuracy of the participants fitbit profile (e.g. height, weight) use these with care: ["sumcaloriesoutofrange", "maxcaloriesoutofrange", "mincaloriesoutofrange", "avgcaloriesoutofrange", "mediancaloriesoutofrange", "stdcaloriesoutofrange", "entropycaloriesoutofrange", "sumcaloriesfatburn", "maxcaloriesfatburn", "mincaloriesfatburn", "avgcaloriesfatburn", "mediancaloriesfatburn", "stdcaloriesfatburn", "entropycaloriesfatburn", "sumcaloriescardio", "maxcaloriescardio", "mincaloriescardio", "avgcaloriescardio", "mediancaloriescardio", "stdcaloriescardio", "entropycaloriescardio", "sumcaloriespeak", "maxcaloriespeak", "mincaloriespeak", "avgcaloriespeak", "mediancaloriespeak", "stdcaloriespeak", "entropycaloriespeak"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_heartrate_summary
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_heartrate_summary/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-heartrate-intraday/
|
||||
FITBIT_HEARTRATE_INTRADAY:
|
||||
|
|
@ -381,8 +367,7 @@ FITBIT_HEARTRATE_INTRADAY:
|
|||
RAPIDS:
|
||||
COMPUTE: True
|
||||
FEATURES: ["maxhr", "minhr", "avghr", "medianhr", "modehr", "stdhr", "diffmaxmodehr", "diffminmodehr", "entropyhr", "minutesonoutofrangezone", "minutesonfatburnzone", "minutesoncardiozone", "minutesonpeakzone"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_heartrate_intraday
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_heartrate_intraday/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-sleep-summary/
|
||||
FITBIT_SLEEP_SUMMARY:
|
||||
|
|
@ -393,8 +378,7 @@ FITBIT_SLEEP_SUMMARY:
|
|||
COMPUTE: True
|
||||
FEATURES: ["countepisode", "avgefficiency", "sumdurationafterwakeup", "sumdurationasleep", "sumdurationawake", "sumdurationtofallasleep", "sumdurationinbed", "avgdurationafterwakeup", "avgdurationasleep", "avgdurationawake", "avgdurationtofallasleep", "avgdurationinbed"]
|
||||
SLEEP_TYPES: ["main", "nap", "all"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_sleep_summary
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_sleep_summary/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-sleep-intraday/
|
||||
FITBIT_SLEEP_INTRADAY:
|
||||
|
|
@ -415,8 +399,7 @@ FITBIT_SLEEP_INTRADAY:
|
|||
SLEEP_TYPES: [main, nap]
|
||||
INCLUDE_SLEEP_LATER_THAN: 0 # a number ranged from 0 (midnight) to 1439 (23:59)
|
||||
REFERENCE_TIME: MIDNIGHT # chosen from "MIDNIGHT" and "START_OF_THE_SEGMENT"
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_sleep_intraday
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_sleep_intraday/rapids/main.py
|
||||
|
||||
PRICE:
|
||||
COMPUTE: False
|
||||
|
|
@ -429,8 +412,7 @@ FITBIT_SLEEP_INTRADAY:
|
|||
GROUP_EPISODES_WITHIN: # by default: today's 6pm to tomorrow's noon
|
||||
START_TIME: 1080 # number of minutes after the midnight (18:00) 18*60
|
||||
LENGTH: 1080 # in minutes (18 hours) 18*60
|
||||
SRC_FOLDER: "price" # inside src/features/fitbit_sleep_intraday
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_sleep_intraday/price/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-steps-summary/
|
||||
FITBIT_STEPS_SUMMARY:
|
||||
|
|
@ -439,8 +421,7 @@ FITBIT_STEPS_SUMMARY:
|
|||
RAPIDS:
|
||||
COMPUTE: True
|
||||
FEATURES: ["maxsumsteps", "minsumsteps", "avgsumsteps", "mediansumsteps", "stdsumsteps"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_steps_summary
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_steps_summary/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-steps-intraday/
|
||||
FITBIT_STEPS_INTRADAY:
|
||||
|
|
@ -454,8 +435,7 @@ FITBIT_STEPS_INTRADAY:
|
|||
ACTIVE_BOUT: ["countepisode", "sumduration", "maxduration", "minduration", "avgduration", "stdduration"]
|
||||
THRESHOLD_ACTIVE_BOUT: 10 # steps
|
||||
INCLUDE_ZERO_STEP_ROWS: False
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_steps_intraday
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_steps_intraday/rapids/main.py
|
||||
|
||||
########################################################################################################################
|
||||
# EMPATICA #
|
||||
|
|
@ -477,8 +457,7 @@ EMPATICA_ACCELEROMETER:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxmagnitude", "minmagnitude", "avgmagnitude", "medianmagnitude", "stdmagnitude"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_accelerometer
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_accelerometer/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-heartrate/
|
||||
EMPATICA_HEARTRATE:
|
||||
|
|
@ -487,8 +466,7 @@ EMPATICA_HEARTRATE:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxhr", "minhr", "avghr", "medianhr", "modehr", "stdhr", "diffmaxmodehr", "diffminmodehr", "entropyhr"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_heartrate
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_heartrate/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-temperature/
|
||||
EMPATICA_TEMPERATURE:
|
||||
|
|
@ -497,8 +475,7 @@ EMPATICA_TEMPERATURE:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxtemp", "mintemp", "avgtemp", "mediantemp", "modetemp", "stdtemp", "diffmaxmodetemp", "diffminmodetemp", "entropytemp"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_heartrate
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_temperature/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-electrodermal-activity/
|
||||
EMPATICA_ELECTRODERMAL_ACTIVITY:
|
||||
|
|
@ -507,8 +484,7 @@ EMPATICA_ELECTRODERMAL_ACTIVITY:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxeda", "mineda", "avgeda", "medianeda", "modeeda", "stdeda", "diffmaxmodeeda", "diffminmodeeda", "entropyeda"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_electrodermal_activity
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_electrodermal_activity/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-blood-volume-pulse/
|
||||
EMPATICA_BLOOD_VOLUME_PULSE:
|
||||
|
|
@ -517,8 +493,7 @@ EMPATICA_BLOOD_VOLUME_PULSE:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxbvp", "minbvp", "avgbvp", "medianbvp", "modebvp", "stdbvp", "diffmaxmodebvp", "diffminmodebvp", "entropybvp"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_blood_volume_pulse
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_blood_volume_pulse/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-inter-beat-interval/
|
||||
EMPATICA_INTER_BEAT_INTERVAL:
|
||||
|
|
@ -527,8 +502,7 @@ EMPATICA_INTER_BEAT_INTERVAL:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxibi", "minibi", "avgibi", "medianibi", "modeibi", "stdibi", "diffmaxmodeibi", "diffminmodeibi", "entropyibi"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/inter_beat_interval
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_inter_beat_interval/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-tags/
|
||||
EMPATICA_TAGS:
|
||||
|
|
|
|||
|
|
@ -1,9 +1,21 @@
|
|||
def get_script_language(script_path):
|
||||
from pathlib import Path
|
||||
script_path = Path(script_path)
|
||||
if not script_path.exists():
|
||||
raise ValueError("The following provider feature script does not exist: " + str(script_path))
|
||||
|
||||
if script_path.name.endswith(".py"):
|
||||
return "python"
|
||||
elif script_path.name.endswith(".R"):
|
||||
return "r"
|
||||
|
||||
|
||||
# Features.smk #########################################################################################################
|
||||
def find_features_files(wildcards):
|
||||
feature_files = []
|
||||
for provider_key, provider in config[(wildcards.sensor_key).upper()]["PROVIDERS"].items():
|
||||
if provider["COMPUTE"]:
|
||||
feature_files.extend(expand("data/interim/{{pid}}/{sensor_key}_features/{sensor_key}_{language}_{provider_key}.csv", sensor_key=wildcards.sensor_key.lower(), language=provider["SRC_LANGUAGE"].lower(), provider_key=provider_key.lower()))
|
||||
feature_files.extend(expand("data/interim/{{pid}}/{sensor_key}_features/{sensor_key}_{language}_{provider_key}.csv", sensor_key=wildcards.sensor_key.lower(), language=get_script_language(provider["SRC_SCRIPT"]), provider_key=provider_key.lower()))
|
||||
return(feature_files)
|
||||
|
||||
def optional_steps_sleep_input(wildcards):
|
||||
|
|
@ -114,3 +126,4 @@ def pull_wearable_data_input_with_mutation_scripts(wilcards):
|
|||
raise ValueError("Mutate scripts can only be Python or R scripts (.py, .R).\n Instead we got {script} in [{sensor}] of {schema}".format(script=script, sensor=sensor, schema=input.get("stream_format")))
|
||||
input["mutationscript"+str(idx)] = script
|
||||
return input
|
||||
|
||||
|
|
|
|||
|
|
@ -53,16 +53,15 @@ fetch_provider_features <- function(provider, provider_key, sensor_key, sensor_d
|
|||
stop(paste0("Provider config[", sensor_key,"][PROVIDERS][", provider_key,"] is missing a FEATURES attribute in config.yaml"))
|
||||
|
||||
if(provider[["COMPUTE"]] == TRUE){
|
||||
code_path <- paste0("src/features/", sensor_key,"/", provider[["SRC_FOLDER"]], "/main.R")
|
||||
source(code_path)
|
||||
features_function <- match.fun(paste0(provider[["SRC_FOLDER"]], "_features"))
|
||||
source(provider[["SRC_SCRIPT"]])
|
||||
features_function <- match.fun(paste0(tolower(provider_key), "_features"))
|
||||
time_segments <- time_segments_labels %>% pull(label)
|
||||
for (time_segment in time_segments){
|
||||
print(paste(rapids_log_tag,"Processing", sensor_key, provider_key, time_segment))
|
||||
|
||||
features <- features_function(sensor_data_files, time_segment, provider)
|
||||
if(!"local_segment" %in% colnames(features))
|
||||
stop(paste0("The dataframe returned by the ",sensor_key," provider '", provider_key,"' is missing the 'local_segment' column added by the 'filter_data_by_segment()' function. Check the provider script is using such function and is not removing 'local_segment' by accident (", code_path,")\n The 'local_segment' column is used to index a provider's features (each row corresponds to a different time segment instance (e.g. 2020-01-01, 2020-01-02, 2020-01-03, etc.)"))
|
||||
stop(paste0("The dataframe returned by the ",sensor_key," provider '", provider_key,"' is missing the 'local_segment' column added by the 'filter_data_by_segment()' function. Check the provider script is using such function and is not removing 'local_segment' by accident (", provider[["SRC_SCRIPT"]],")\n The 'local_segment' column is used to index a provider's features (each row corresponds to a different time segment instance (e.g. 2020-01-01, 2020-01-02, 2020-01-03, etc.)"))
|
||||
features <- features %>% rename_at(vars(!matches("local_segment")), ~ paste(sensor_key, provider_key, ., sep = "_"))
|
||||
sensor_features <- merge(sensor_features, features, all = TRUE)
|
||||
}
|
||||
|
|
|
|||
|
|
@ -1,5 +1,19 @@
|
|||
rapids_log_tag = "RAPIDS:"
|
||||
|
||||
import os, sys
|
||||
import importlib
|
||||
|
||||
def import_path(path):
|
||||
module_name = os.path.basename(path).replace('-', '_')
|
||||
spec = importlib.util.spec_from_loader(
|
||||
module_name,
|
||||
importlib.machinery.SourceFileLoader(module_name, path)
|
||||
)
|
||||
module = importlib.util.module_from_spec(spec)
|
||||
spec.loader.exec_module(module)
|
||||
sys.modules[module_name] = module
|
||||
return module
|
||||
|
||||
def filter_data_by_segment(data, time_segment):
|
||||
data.dropna(subset=["assigned_segments"], inplace=True)
|
||||
if(data.shape[0] == 0): # data is empty
|
||||
|
|
@ -85,15 +99,14 @@ def fetch_provider_features(provider, provider_key, sensor_key, sensor_data_file
|
|||
|
||||
if provider["COMPUTE"] == True:
|
||||
|
||||
code_path = sensor_key + "." + provider["SRC_FOLDER"] + ".main"
|
||||
feature_module = import_module(code_path)
|
||||
feature_function = getattr(feature_module, provider["SRC_FOLDER"] + "_features")
|
||||
feature_module = import_path(provider["SRC_SCRIPT"])
|
||||
feature_function = getattr(feature_module, provider_key.lower() + "_features")
|
||||
|
||||
for time_segment in time_segments_labels["label"]:
|
||||
print("{} Processing {} {} {}".format(rapids_log_tag, sensor_key, provider_key, time_segment))
|
||||
features = feature_function(sensor_data_files, time_segment, provider, filter_data_by_segment=filter_data_by_segment, chunk_episodes=chunk_episodes)
|
||||
if not "local_segment" in features.columns:
|
||||
raise ValueError("The dataframe returned by the " + sensor_key + " provider '" + provider_key + "' is missing the 'local_segment' column added by the 'filter_data_by_segment()' function. Check the provider script is using such function and is not removing 'local_segment' by accident (" + code_path + ")\n The 'local_segment' column is used to index a provider's features (each row corresponds to a different time segment instance (e.g. 2020-01-01, 2020-01-02, 2020-01-03, etc.)")
|
||||
raise ValueError("The dataframe returned by the " + sensor_key + " provider '" + provider_key + "' is missing the 'local_segment' column added by the 'filter_data_by_segment()' function. Check the provider script is using such function and is not removing 'local_segment' by accident (" + provider["SRC_SCRIPT"] + ")\n The 'local_segment' column is used to index a provider's features (each row corresponds to a different time segment instance (e.g. 2020-01-01, 2020-01-02, 2020-01-03, etc.)")
|
||||
features.columns = ["{}{}".format("" if col.startswith("local_segment") else (sensor_key + "_"+ provider_key + "_"), col) for col in features.columns]
|
||||
sensor_features = pd.concat([sensor_features, features], axis=0, sort=False)
|
||||
else:
|
||||
|
|
|
|||
|
|
@ -8,15 +8,15 @@ run_pipeline() {
|
|||
CONFIG_FILE="./tests/settings/periodic_config.yaml"
|
||||
fi
|
||||
|
||||
echo "Copying participant files"
|
||||
cp -r tests/data/external/participant_files/* data/external/participant_files/
|
||||
|
||||
echo $TYPE
|
||||
echo "Deleting old outputs"
|
||||
snakemake --configfile=$(echo $CONFIG_FILE) --delete-all-output -j1
|
||||
|
||||
echo "Copying participant files"
|
||||
cp -r tests/data/external/participant_files/* data/external/participant_files/
|
||||
|
||||
echo "Running RAPIDS"
|
||||
snakemake --configfile=$(echo $CONFIG_FILE) -R pull_phone_data -j12
|
||||
snakemake --configfile=$(echo $CONFIG_FILE) -R pull_phone_data -j1
|
||||
}
|
||||
|
||||
display_usage() {
|
||||
|
|
|
|||
|
|
@ -44,7 +44,7 @@ TIMEZONE:
|
|||
# PHONE #
|
||||
########################################################################################################################
|
||||
|
||||
# See https://www.rapids.science/latest/setup/configuration/#device-data-source-configuration
|
||||
# See https://www.rapids.science/latest/setup/configuration/#data-stream-configuration
|
||||
PHONE_DATA_STREAMS:
|
||||
USE: aware_csv
|
||||
|
||||
|
|
@ -54,6 +54,10 @@ PHONE_DATA_STREAMS:
|
|||
|
||||
aware_csv:
|
||||
FOLDER: tests/data/external/aware_csv
|
||||
|
||||
aware_influxdb:
|
||||
DATABASE_GROUP: MY_GROUP
|
||||
|
||||
# Sensors ------
|
||||
|
||||
# https://www.rapids.science/latest/features/phone-accelerometer/
|
||||
|
|
@ -63,8 +67,7 @@ PHONE_ACCELEROMETER:
|
|||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxmagnitude", "minmagnitude", "avgmagnitude", "medianmagnitude", "stdmagnitude"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_accelerometer
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_accelerometer/rapids/main.py
|
||||
|
||||
PANDA:
|
||||
COMPUTE: False
|
||||
|
|
@ -72,8 +75,7 @@ PHONE_ACCELEROMETER:
|
|||
FEATURES:
|
||||
exertional_activity_episode: ["sumduration", "maxduration", "minduration", "avgduration", "medianduration", "stdduration"]
|
||||
nonexertional_activity_episode: ["sumduration", "maxduration", "minduration", "avgduration", "medianduration", "stdduration"]
|
||||
SRC_FOLDER: "panda" # inside src/features/phone_accelerometer
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_accelerometer/panda/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-activity-recognition/
|
||||
PHONE_ACTIVITY_RECOGNITION:
|
||||
|
|
@ -89,8 +91,7 @@ PHONE_ACTIVITY_RECOGNITION:
|
|||
STATIONARY: ["still", "tilting"]
|
||||
MOBILE: ["on_foot", "walking", "running", "on_bicycle"]
|
||||
VEHICLE: ["in_vehicle"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_activity_recognition
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_activity_recognition/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-applications-crashes/
|
||||
PHONE_APPLICATIONS_CRASHES:
|
||||
|
|
@ -121,8 +122,7 @@ PHONE_APPLICATIONS_FOREGROUND:
|
|||
EXCLUDED_CATEGORIES: []
|
||||
EXCLUDED_APPS: ["com.fitbit.FitbitMobile", "com.aware.plugin.upmc.cancer"]
|
||||
FEATURES: ["count", "timeoffirstuse", "timeoflastuse", "frequencyentropy"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_applications_foreground
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_applications_foreground/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-applications-notifications/
|
||||
PHONE_APPLICATIONS_NOTIFICATIONS:
|
||||
|
|
@ -142,8 +142,7 @@ PHONE_BATTERY:
|
|||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["countdischarge", "sumdurationdischarge", "countcharge", "sumdurationcharge", "avgconsumptionrate", "maxconsumptionrate"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_battery
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_battery/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-bluetooth/
|
||||
PHONE_BLUETOOTH:
|
||||
|
|
@ -152,8 +151,8 @@ PHONE_BLUETOOTH:
|
|||
RAPIDS:
|
||||
COMPUTE: True
|
||||
FEATURES: ["countscans", "uniquedevices", "countscansmostuniquedevice"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_bluetooth
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_SCRIPT: src/features/phone_bluetooth/rapids/main.R
|
||||
|
||||
DORYAB:
|
||||
COMPUTE: False
|
||||
FEATURES:
|
||||
|
|
@ -169,8 +168,7 @@ PHONE_BLUETOOTH:
|
|||
DEVICES: ["countscans", "uniquedevices", "meanscans", "stdscans"]
|
||||
SCANS_MOST_FREQUENT_DEVICE: ["withinsegments", "acrosssegments", "acrossdataset"]
|
||||
SCANS_LEAST_FREQUENT_DEVICE: ["withinsegments", "acrosssegments", "acrossdataset"]
|
||||
SRC_FOLDER: "doryab" # inside src/features/phone_bluetooth
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_bluetooth/doryab/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-calls/
|
||||
PHONE_CALLS:
|
||||
|
|
@ -183,8 +181,7 @@ PHONE_CALLS:
|
|||
missed: [count, distinctcontacts, timefirstcall, timelastcall, countmostfrequentcontact]
|
||||
incoming: [count, distinctcontacts, meanduration, sumduration, minduration, maxduration, stdduration, modeduration, entropyduration, timefirstcall, timelastcall, countmostfrequentcontact]
|
||||
outgoing: [count, distinctcontacts, meanduration, sumduration, minduration, maxduration, stdduration, modeduration, entropyduration, timefirstcall, timelastcall, countmostfrequentcontact]
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_calls
|
||||
SRC_SCRIPT: src/features/phone_calls/rapids/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-conversation/
|
||||
PHONE_CONVERSATION:
|
||||
|
|
@ -202,8 +199,7 @@ PHONE_CONVERSATION:
|
|||
"unknownexpectedfraction","countconversation"]
|
||||
RECORDING_MINUTES: 1
|
||||
PAUSED_MINUTES : 3
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_conversation
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_conversation/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-data-yield/
|
||||
PHONE_DATA_YIELD:
|
||||
|
|
@ -213,8 +209,7 @@ PHONE_DATA_YIELD:
|
|||
COMPUTE: False
|
||||
FEATURES: [ratiovalidyieldedminutes, ratiovalidyieldedhours]
|
||||
MINUTE_RATIO_THRESHOLD_FOR_VALID_YIELDED_HOURS: 0.5 # 0 to 1, minimum percentage of valid minutes in an hour to be considered valid.
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_data_yield
|
||||
SRC_SCRIPT: src/features/phone_data_yield/rapids/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-keyboard/
|
||||
PHONE_KEYBOARD:
|
||||
|
|
@ -228,8 +223,7 @@ PHONE_LIGHT:
|
|||
RAPIDS:
|
||||
COMPUTE: True
|
||||
FEATURES: ["count", "maxlux", "minlux", "avglux", "medianlux", "stdlux"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_light
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_light/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-locations/
|
||||
PHONE_LOCATIONS:
|
||||
|
|
@ -257,8 +251,7 @@ PHONE_LOCATIONS:
|
|||
CLUSTER_ON: PARTICIPANT_DATASET # PARTICIPANT_DATASET,TIME_SEGMENT
|
||||
CLUSTERING_ALGORITHM: DBSCAN #DBSCAN,OPTICS
|
||||
RADIUS_FOR_HOME: 100
|
||||
SRC_FOLDER: "doryab" # inside src/features/phone_locations
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_locations/doryab/main.py
|
||||
|
||||
BARNETT:
|
||||
COMPUTE: False
|
||||
|
|
@ -266,8 +259,7 @@ PHONE_LOCATIONS:
|
|||
ACCURACY_LIMIT: 100 # meters, drops location coordinates with an accuracy higher than this. This number means there's a 68% probability the true location is within this radius
|
||||
IF_MULTIPLE_TIMEZONES: USE_MOST_COMMON
|
||||
MINUTES_DATA_USED: False # Use this for quality control purposes, how many minutes of data (location coordinates gruped by minute) were used to compute features
|
||||
SRC_FOLDER: "barnett" # inside src/features/phone_locations
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_SCRIPT: src/features/phone_locations/barnett/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-log/
|
||||
PHONE_LOG:
|
||||
|
|
@ -286,8 +278,7 @@ PHONE_MESSAGES:
|
|||
FEATURES:
|
||||
received: [count, distinctcontacts, timefirstmessage, timelastmessage, countmostfrequentcontact]
|
||||
sent: [count, distinctcontacts, timefirstmessage, timelastmessage, countmostfrequentcontact]
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_messages
|
||||
SRC_SCRIPT: src/features/phone_messages/rapids/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-screen/
|
||||
PHONE_SCREEN:
|
||||
|
|
@ -300,8 +291,7 @@ PHONE_SCREEN:
|
|||
IGNORE_EPISODES_LONGER_THAN: 0 # in minutes, set to 0 to disable
|
||||
FEATURES: ["countepisode", "sumduration", "maxduration", "minduration", "avgduration", "stdduration", "firstuseafter"] # "episodepersensedminutes" needs to be added later
|
||||
EPISODE_TYPES: ["unlock"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_screen
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_screen/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-wifi-connected/
|
||||
PHONE_WIFI_CONNECTED:
|
||||
|
|
@ -310,8 +300,7 @@ PHONE_WIFI_CONNECTED:
|
|||
RAPIDS:
|
||||
COMPUTE: True
|
||||
FEATURES: ["countscans", "uniquedevices", "countscansmostuniquedevice"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_wifi_connected
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_SCRIPT: src/features/phone_wifi_connected/rapids/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-wifi-visible/
|
||||
PHONE_WIFI_VISIBLE:
|
||||
|
|
@ -320,8 +309,7 @@ PHONE_WIFI_VISIBLE:
|
|||
RAPIDS:
|
||||
COMPUTE: True
|
||||
FEATURES: ["countscans", "uniquedevices", "countscansmostuniquedevice"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_wifi_visible
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_SCRIPT: src/features/phone_wifi_visible/rapids/main.R
|
||||
|
||||
|
||||
|
||||
|
|
@ -329,7 +317,7 @@ PHONE_WIFI_VISIBLE:
|
|||
# FITBIT #
|
||||
########################################################################################################################
|
||||
|
||||
# See https://www.rapids.science/latest/setup/configuration/#device-data-source-configuration
|
||||
# See https://www.rapids.science/latest/setup/configuration/#data-stream-configuration
|
||||
FITBIT_DATA_STREAMS:
|
||||
USE: fitbitjson_mysql
|
||||
|
||||
|
|
@ -360,8 +348,7 @@ FITBIT_DATA_YIELD:
|
|||
COMPUTE: False
|
||||
FEATURES: [ratiovalidyieldedminutes, ratiovalidyieldedhours]
|
||||
MINUTE_RATIO_THRESHOLD_FOR_VALID_YIELDED_HOURS: 0.5 # 0 to 1, minimum percentage of valid minutes in an hour to be considered valid.
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_data_yield
|
||||
SRC_SCRIPT: src/features/fitbit_data_yield/rapids/main.R
|
||||
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-heartrate-summary/
|
||||
|
|
@ -371,8 +358,7 @@ FITBIT_HEARTRATE_SUMMARY:
|
|||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxrestinghr", "minrestinghr", "avgrestinghr", "medianrestinghr", "moderestinghr", "stdrestinghr", "diffmaxmoderestinghr", "diffminmoderestinghr", "entropyrestinghr"] # calories features' accuracy depend on the accuracy of the participants fitbit profile (e.g. height, weight) use these with care: ["sumcaloriesoutofrange", "maxcaloriesoutofrange", "mincaloriesoutofrange", "avgcaloriesoutofrange", "mediancaloriesoutofrange", "stdcaloriesoutofrange", "entropycaloriesoutofrange", "sumcaloriesfatburn", "maxcaloriesfatburn", "mincaloriesfatburn", "avgcaloriesfatburn", "mediancaloriesfatburn", "stdcaloriesfatburn", "entropycaloriesfatburn", "sumcaloriescardio", "maxcaloriescardio", "mincaloriescardio", "avgcaloriescardio", "mediancaloriescardio", "stdcaloriescardio", "entropycaloriescardio", "sumcaloriespeak", "maxcaloriespeak", "mincaloriespeak", "avgcaloriespeak", "mediancaloriespeak", "stdcaloriespeak", "entropycaloriespeak"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_heartrate_summary
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_heartrate_summary/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-heartrate-intraday/
|
||||
FITBIT_HEARTRATE_INTRADAY:
|
||||
|
|
@ -381,8 +367,7 @@ FITBIT_HEARTRATE_INTRADAY:
|
|||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxhr", "minhr", "avghr", "medianhr", "modehr", "stdhr", "diffmaxmodehr", "diffminmodehr", "entropyhr", "minutesonoutofrangezone", "minutesonfatburnzone", "minutesoncardiozone", "minutesonpeakzone"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_heartrate_intraday
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_heartrate_intraday/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-sleep-summary/
|
||||
FITBIT_SLEEP_SUMMARY:
|
||||
|
|
@ -392,8 +377,7 @@ FITBIT_SLEEP_SUMMARY:
|
|||
COMPUTE: False
|
||||
FEATURES: ["countepisode", "avgefficiency", "sumdurationafterwakeup", "sumdurationasleep", "sumdurationawake", "sumdurationtofallasleep", "sumdurationinbed", "avgdurationafterwakeup", "avgdurationasleep", "avgdurationawake", "avgdurationtofallasleep", "avgdurationinbed"]
|
||||
SLEEP_TYPES: ["main", "nap", "all"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_sleep_summary
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_sleep_summary/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-sleep-intraday/
|
||||
FITBIT_SLEEP_INTRADAY:
|
||||
|
|
@ -414,8 +398,7 @@ FITBIT_SLEEP_INTRADAY:
|
|||
SLEEP_TYPES: [main, nap]
|
||||
INCLUDE_SLEEP_LATER_THAN: 0 # a number ranged from 0 (midnight) to 1439 (23:59)
|
||||
REFERENCE_TIME: MIDNIGHT # chosen from "MIDNIGHT" and "START_OF_THE_SEGMENT"
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_sleep_intraday
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_sleep_intraday/rapids/main.py
|
||||
|
||||
PRICE:
|
||||
COMPUTE: False
|
||||
|
|
@ -428,8 +411,7 @@ FITBIT_SLEEP_INTRADAY:
|
|||
GROUP_EPISODES_WITHIN: # by default: today's 6pm to tomorrow's noon
|
||||
START_TIME: 1080 # number of minutes after the midnight (18:00) 18*60
|
||||
LENGTH: 1080 # in minutes (18 hours) 18*60
|
||||
SRC_FOLDER: "price" # inside src/features/fitbit_sleep_intraday
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_sleep_intraday/price/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-steps-summary/
|
||||
FITBIT_STEPS_SUMMARY:
|
||||
|
|
@ -438,8 +420,7 @@ FITBIT_STEPS_SUMMARY:
|
|||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxsumsteps", "minsumsteps", "avgsumsteps", "mediansumsteps", "stdsumsteps"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_steps_summary
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_steps_summary/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-steps-intraday/
|
||||
FITBIT_STEPS_INTRADAY:
|
||||
|
|
@ -453,8 +434,7 @@ FITBIT_STEPS_INTRADAY:
|
|||
ACTIVE_BOUT: ["countepisode", "sumduration", "maxduration", "minduration", "avgduration", "stdduration"]
|
||||
THRESHOLD_ACTIVE_BOUT: 10 # steps
|
||||
INCLUDE_ZERO_STEP_ROWS: False
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_steps_intraday
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_steps_intraday/rapids/main.py
|
||||
|
||||
########################################################################################################################
|
||||
# EMPATICA #
|
||||
|
|
@ -476,8 +456,7 @@ EMPATICA_ACCELEROMETER:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxmagnitude", "minmagnitude", "avgmagnitude", "medianmagnitude", "stdmagnitude"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_accelerometer
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_accelerometer/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-heartrate/
|
||||
EMPATICA_HEARTRATE:
|
||||
|
|
@ -486,8 +465,7 @@ EMPATICA_HEARTRATE:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxhr", "minhr", "avghr", "medianhr", "modehr", "stdhr", "diffmaxmodehr", "diffminmodehr", "entropyhr"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_heartrate
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_heartrate/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-temperature/
|
||||
EMPATICA_TEMPERATURE:
|
||||
|
|
@ -496,8 +474,7 @@ EMPATICA_TEMPERATURE:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxtemp", "mintemp", "avgtemp", "mediantemp", "modetemp", "stdtemp", "diffmaxmodetemp", "diffminmodetemp", "entropytemp"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_heartrate
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_temperature/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-electrodermal-activity/
|
||||
EMPATICA_ELECTRODERMAL_ACTIVITY:
|
||||
|
|
@ -506,8 +483,7 @@ EMPATICA_ELECTRODERMAL_ACTIVITY:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxeda", "mineda", "avgeda", "medianeda", "modeeda", "stdeda", "diffmaxmodeeda", "diffminmodeeda", "entropyeda"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_electrodermal_activity
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_electrodermal_activity/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-blood-volume-pulse/
|
||||
EMPATICA_BLOOD_VOLUME_PULSE:
|
||||
|
|
@ -516,8 +492,7 @@ EMPATICA_BLOOD_VOLUME_PULSE:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxbvp", "minbvp", "avgbvp", "medianbvp", "modebvp", "stdbvp", "diffmaxmodebvp", "diffminmodebvp", "entropybvp"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_blood_volume_pulse
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_blood_volume_pulse/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-inter-beat-interval/
|
||||
EMPATICA_INTER_BEAT_INTERVAL:
|
||||
|
|
@ -526,8 +501,7 @@ EMPATICA_INTER_BEAT_INTERVAL:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxibi", "minibi", "avgibi", "medianibi", "modeibi", "stdibi", "diffmaxmodeibi", "diffminmodeibi", "entropyibi"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/inter_beat_interval
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_inter_beat_interval/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-tags/
|
||||
EMPATICA_TAGS:
|
||||
|
|
|
|||
|
|
@ -44,7 +44,7 @@ TIMEZONE:
|
|||
# PHONE #
|
||||
########################################################################################################################
|
||||
|
||||
# See https://www.rapids.science/latest/setup/configuration/#device-data-source-configuration
|
||||
# See https://www.rapids.science/latest/setup/configuration/#data-stream-configuration
|
||||
PHONE_DATA_STREAMS:
|
||||
USE: aware_csv
|
||||
|
||||
|
|
@ -54,6 +54,10 @@ PHONE_DATA_STREAMS:
|
|||
|
||||
aware_csv:
|
||||
FOLDER: tests/data/external/aware_csv
|
||||
|
||||
aware_influxdb:
|
||||
DATABASE_GROUP: MY_GROUP
|
||||
|
||||
# Sensors ------
|
||||
|
||||
# https://www.rapids.science/latest/features/phone-accelerometer/
|
||||
|
|
@ -63,8 +67,7 @@ PHONE_ACCELEROMETER:
|
|||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxmagnitude", "minmagnitude", "avgmagnitude", "medianmagnitude", "stdmagnitude"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_accelerometer
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_accelerometer/rapids/main.py
|
||||
|
||||
PANDA:
|
||||
COMPUTE: False
|
||||
|
|
@ -72,8 +75,7 @@ PHONE_ACCELEROMETER:
|
|||
FEATURES:
|
||||
exertional_activity_episode: ["sumduration", "maxduration", "minduration", "avgduration", "medianduration", "stdduration"]
|
||||
nonexertional_activity_episode: ["sumduration", "maxduration", "minduration", "avgduration", "medianduration", "stdduration"]
|
||||
SRC_FOLDER: "panda" # inside src/features/phone_accelerometer
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_accelerometer/panda/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-activity-recognition/
|
||||
PHONE_ACTIVITY_RECOGNITION:
|
||||
|
|
@ -89,8 +91,7 @@ PHONE_ACTIVITY_RECOGNITION:
|
|||
STATIONARY: ["still", "tilting"]
|
||||
MOBILE: ["on_foot", "walking", "running", "on_bicycle"]
|
||||
VEHICLE: ["in_vehicle"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_activity_recognition
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_activity_recognition/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-applications-crashes/
|
||||
PHONE_APPLICATIONS_CRASHES:
|
||||
|
|
@ -121,8 +122,7 @@ PHONE_APPLICATIONS_FOREGROUND:
|
|||
EXCLUDED_CATEGORIES: []
|
||||
EXCLUDED_APPS: ["com.fitbit.FitbitMobile", "com.aware.plugin.upmc.cancer"]
|
||||
FEATURES: ["count", "timeoffirstuse", "timeoflastuse", "frequencyentropy"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_applications_foreground
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_applications_foreground/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-applications-notifications/
|
||||
PHONE_APPLICATIONS_NOTIFICATIONS:
|
||||
|
|
@ -142,8 +142,7 @@ PHONE_BATTERY:
|
|||
RAPIDS:
|
||||
COMPUTE: True
|
||||
FEATURES: ["countdischarge", "sumdurationdischarge", "countcharge", "sumdurationcharge", "avgconsumptionrate", "maxconsumptionrate"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_battery
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_battery/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-bluetooth/
|
||||
PHONE_BLUETOOTH:
|
||||
|
|
@ -152,8 +151,8 @@ PHONE_BLUETOOTH:
|
|||
RAPIDS:
|
||||
COMPUTE: True
|
||||
FEATURES: ["countscans", "uniquedevices", "countscansmostuniquedevice"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_bluetooth
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_SCRIPT: src/features/phone_bluetooth/rapids/main.R
|
||||
|
||||
DORYAB:
|
||||
COMPUTE: False
|
||||
FEATURES:
|
||||
|
|
@ -169,8 +168,7 @@ PHONE_BLUETOOTH:
|
|||
DEVICES: ["countscans", "uniquedevices", "meanscans", "stdscans"]
|
||||
SCANS_MOST_FREQUENT_DEVICE: ["withinsegments", "acrosssegments", "acrossdataset"]
|
||||
SCANS_LEAST_FREQUENT_DEVICE: ["withinsegments", "acrosssegments", "acrossdataset"]
|
||||
SRC_FOLDER: "doryab" # inside src/features/phone_bluetooth
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_bluetooth/doryab/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-calls/
|
||||
PHONE_CALLS:
|
||||
|
|
@ -183,8 +181,7 @@ PHONE_CALLS:
|
|||
missed: [count, distinctcontacts, timefirstcall, timelastcall, countmostfrequentcontact]
|
||||
incoming: [count, distinctcontacts, meanduration, sumduration, minduration, maxduration, stdduration, modeduration, entropyduration, timefirstcall, timelastcall, countmostfrequentcontact]
|
||||
outgoing: [count, distinctcontacts, meanduration, sumduration, minduration, maxduration, stdduration, modeduration, entropyduration, timefirstcall, timelastcall, countmostfrequentcontact]
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_calls
|
||||
SRC_SCRIPT: src/features/phone_calls/rapids/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-conversation/
|
||||
PHONE_CONVERSATION:
|
||||
|
|
@ -202,8 +199,7 @@ PHONE_CONVERSATION:
|
|||
"unknownexpectedfraction","countconversation"]
|
||||
RECORDING_MINUTES: 1
|
||||
PAUSED_MINUTES : 3
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_conversation
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_conversation/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-data-yield/
|
||||
PHONE_DATA_YIELD:
|
||||
|
|
@ -213,8 +209,7 @@ PHONE_DATA_YIELD:
|
|||
COMPUTE: False
|
||||
FEATURES: [ratiovalidyieldedminutes, ratiovalidyieldedhours]
|
||||
MINUTE_RATIO_THRESHOLD_FOR_VALID_YIELDED_HOURS: 0.5 # 0 to 1, minimum percentage of valid minutes in an hour to be considered valid.
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_data_yield
|
||||
SRC_SCRIPT: src/features/phone_data_yield/rapids/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-keyboard/
|
||||
PHONE_KEYBOARD:
|
||||
|
|
@ -228,8 +223,7 @@ PHONE_LIGHT:
|
|||
RAPIDS:
|
||||
COMPUTE: True
|
||||
FEATURES: ["count", "maxlux", "minlux", "avglux", "medianlux", "stdlux"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_light
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_light/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-locations/
|
||||
PHONE_LOCATIONS:
|
||||
|
|
@ -257,8 +251,7 @@ PHONE_LOCATIONS:
|
|||
CLUSTER_ON: PARTICIPANT_DATASET # PARTICIPANT_DATASET,TIME_SEGMENT
|
||||
CLUSTERING_ALGORITHM: DBSCAN #DBSCAN,OPTICS
|
||||
RADIUS_FOR_HOME: 100
|
||||
SRC_FOLDER: "doryab" # inside src/features/phone_locations
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_locations/doryab/main.py
|
||||
|
||||
BARNETT:
|
||||
COMPUTE: False
|
||||
|
|
@ -266,8 +259,7 @@ PHONE_LOCATIONS:
|
|||
ACCURACY_LIMIT: 100 # meters, drops location coordinates with an accuracy higher than this. This number means there's a 68% probability the true location is within this radius
|
||||
IF_MULTIPLE_TIMEZONES: USE_MOST_COMMON
|
||||
MINUTES_DATA_USED: False # Use this for quality control purposes, how many minutes of data (location coordinates gruped by minute) were used to compute features
|
||||
SRC_FOLDER: "barnett" # inside src/features/phone_locations
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_SCRIPT: src/features/phone_locations/barnett/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-log/
|
||||
PHONE_LOG:
|
||||
|
|
@ -286,8 +278,7 @@ PHONE_MESSAGES:
|
|||
FEATURES:
|
||||
received: [count, distinctcontacts, timefirstmessage, timelastmessage, countmostfrequentcontact]
|
||||
sent: [count, distinctcontacts, timefirstmessage, timelastmessage, countmostfrequentcontact]
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_messages
|
||||
SRC_SCRIPT: src/features/phone_messages/rapids/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-screen/
|
||||
PHONE_SCREEN:
|
||||
|
|
@ -300,8 +291,7 @@ PHONE_SCREEN:
|
|||
IGNORE_EPISODES_LONGER_THAN: 0 # in minutes, set to 0 to disable
|
||||
FEATURES: ["countepisode", "sumduration", "maxduration", "minduration", "avgduration", "stdduration", "firstuseafter"] # "episodepersensedminutes" needs to be added later
|
||||
EPISODE_TYPES: ["unlock"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_screen
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/phone_screen/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-wifi-connected/
|
||||
PHONE_WIFI_CONNECTED:
|
||||
|
|
@ -310,8 +300,7 @@ PHONE_WIFI_CONNECTED:
|
|||
RAPIDS:
|
||||
COMPUTE: True
|
||||
FEATURES: ["countscans", "uniquedevices", "countscansmostuniquedevice"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_wifi_connected
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_SCRIPT: src/features/phone_wifi_connected/rapids/main.R
|
||||
|
||||
# See https://www.rapids.science/latest/features/phone-wifi-visible/
|
||||
PHONE_WIFI_VISIBLE:
|
||||
|
|
@ -320,8 +309,7 @@ PHONE_WIFI_VISIBLE:
|
|||
RAPIDS:
|
||||
COMPUTE: True
|
||||
FEATURES: ["countscans", "uniquedevices", "countscansmostuniquedevice"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/phone_wifi_visible
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_SCRIPT: src/features/phone_wifi_visible/rapids/main.R
|
||||
|
||||
|
||||
|
||||
|
|
@ -329,7 +317,7 @@ PHONE_WIFI_VISIBLE:
|
|||
# FITBIT #
|
||||
########################################################################################################################
|
||||
|
||||
# See https://www.rapids.science/latest/setup/configuration/#device-data-source-configuration
|
||||
# See https://www.rapids.science/latest/setup/configuration/#data-stream-configuration
|
||||
FITBIT_DATA_STREAMS:
|
||||
USE: fitbitjson_mysql
|
||||
|
||||
|
|
@ -360,8 +348,7 @@ FITBIT_DATA_YIELD:
|
|||
COMPUTE: False
|
||||
FEATURES: [ratiovalidyieldedminutes, ratiovalidyieldedhours]
|
||||
MINUTE_RATIO_THRESHOLD_FOR_VALID_YIELDED_HOURS: 0.5 # 0 to 1, minimum percentage of valid minutes in an hour to be considered valid.
|
||||
SRC_LANGUAGE: "r"
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_data_yield
|
||||
SRC_SCRIPT: src/features/fitbit_data_yield/rapids/main.R
|
||||
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-heartrate-summary/
|
||||
|
|
@ -371,8 +358,7 @@ FITBIT_HEARTRATE_SUMMARY:
|
|||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxrestinghr", "minrestinghr", "avgrestinghr", "medianrestinghr", "moderestinghr", "stdrestinghr", "diffmaxmoderestinghr", "diffminmoderestinghr", "entropyrestinghr"] # calories features' accuracy depend on the accuracy of the participants fitbit profile (e.g. height, weight) use these with care: ["sumcaloriesoutofrange", "maxcaloriesoutofrange", "mincaloriesoutofrange", "avgcaloriesoutofrange", "mediancaloriesoutofrange", "stdcaloriesoutofrange", "entropycaloriesoutofrange", "sumcaloriesfatburn", "maxcaloriesfatburn", "mincaloriesfatburn", "avgcaloriesfatburn", "mediancaloriesfatburn", "stdcaloriesfatburn", "entropycaloriesfatburn", "sumcaloriescardio", "maxcaloriescardio", "mincaloriescardio", "avgcaloriescardio", "mediancaloriescardio", "stdcaloriescardio", "entropycaloriescardio", "sumcaloriespeak", "maxcaloriespeak", "mincaloriespeak", "avgcaloriespeak", "mediancaloriespeak", "stdcaloriespeak", "entropycaloriespeak"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_heartrate_summary
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_heartrate_summary/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-heartrate-intraday/
|
||||
FITBIT_HEARTRATE_INTRADAY:
|
||||
|
|
@ -381,8 +367,7 @@ FITBIT_HEARTRATE_INTRADAY:
|
|||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxhr", "minhr", "avghr", "medianhr", "modehr", "stdhr", "diffmaxmodehr", "diffminmodehr", "entropyhr", "minutesonoutofrangezone", "minutesonfatburnzone", "minutesoncardiozone", "minutesonpeakzone"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_heartrate_intraday
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_heartrate_intraday/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-sleep-summary/
|
||||
FITBIT_SLEEP_SUMMARY:
|
||||
|
|
@ -392,8 +377,7 @@ FITBIT_SLEEP_SUMMARY:
|
|||
COMPUTE: False
|
||||
FEATURES: ["countepisode", "avgefficiency", "sumdurationafterwakeup", "sumdurationasleep", "sumdurationawake", "sumdurationtofallasleep", "sumdurationinbed", "avgdurationafterwakeup", "avgdurationasleep", "avgdurationawake", "avgdurationtofallasleep", "avgdurationinbed"]
|
||||
SLEEP_TYPES: ["main", "nap", "all"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_sleep_summary
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_sleep_summary/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-sleep-intraday/
|
||||
FITBIT_SLEEP_INTRADAY:
|
||||
|
|
@ -414,8 +398,7 @@ FITBIT_SLEEP_INTRADAY:
|
|||
SLEEP_TYPES: [main, nap]
|
||||
INCLUDE_SLEEP_LATER_THAN: 0 # a number ranged from 0 (midnight) to 1439 (23:59)
|
||||
REFERENCE_TIME: MIDNIGHT # chosen from "MIDNIGHT" and "START_OF_THE_SEGMENT"
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_sleep_intraday
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_sleep_intraday/rapids/main.py
|
||||
|
||||
PRICE:
|
||||
COMPUTE: False
|
||||
|
|
@ -428,8 +411,7 @@ FITBIT_SLEEP_INTRADAY:
|
|||
GROUP_EPISODES_WITHIN: # by default: today's 6pm to tomorrow's noon
|
||||
START_TIME: 1080 # number of minutes after the midnight (18:00) 18*60
|
||||
LENGTH: 1080 # in minutes (18 hours) 18*60
|
||||
SRC_FOLDER: "price" # inside src/features/fitbit_sleep_intraday
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_sleep_intraday/price/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-steps-summary/
|
||||
FITBIT_STEPS_SUMMARY:
|
||||
|
|
@ -438,8 +420,7 @@ FITBIT_STEPS_SUMMARY:
|
|||
RAPIDS:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxsumsteps", "minsumsteps", "avgsumsteps", "mediansumsteps", "stdsumsteps"]
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_steps_summary
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_steps_summary/rapids/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/fitbit-steps-intraday/
|
||||
FITBIT_STEPS_INTRADAY:
|
||||
|
|
@ -453,8 +434,7 @@ FITBIT_STEPS_INTRADAY:
|
|||
ACTIVE_BOUT: ["countepisode", "sumduration", "maxduration", "minduration", "avgduration", "stdduration"]
|
||||
THRESHOLD_ACTIVE_BOUT: 10 # steps
|
||||
INCLUDE_ZERO_STEP_ROWS: False
|
||||
SRC_FOLDER: "rapids" # inside src/features/fitbit_steps_intraday
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/fitbit_steps_intraday/rapids/main.py
|
||||
|
||||
########################################################################################################################
|
||||
# EMPATICA #
|
||||
|
|
@ -476,8 +456,7 @@ EMPATICA_ACCELEROMETER:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxmagnitude", "minmagnitude", "avgmagnitude", "medianmagnitude", "stdmagnitude"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_accelerometer
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_accelerometer/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-heartrate/
|
||||
EMPATICA_HEARTRATE:
|
||||
|
|
@ -486,8 +465,7 @@ EMPATICA_HEARTRATE:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxhr", "minhr", "avghr", "medianhr", "modehr", "stdhr", "diffmaxmodehr", "diffminmodehr", "entropyhr"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_heartrate
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_heartrate/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-temperature/
|
||||
EMPATICA_TEMPERATURE:
|
||||
|
|
@ -496,8 +474,7 @@ EMPATICA_TEMPERATURE:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxtemp", "mintemp", "avgtemp", "mediantemp", "modetemp", "stdtemp", "diffmaxmodetemp", "diffminmodetemp", "entropytemp"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_heartrate
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_temperature/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-electrodermal-activity/
|
||||
EMPATICA_ELECTRODERMAL_ACTIVITY:
|
||||
|
|
@ -506,8 +483,7 @@ EMPATICA_ELECTRODERMAL_ACTIVITY:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxeda", "mineda", "avgeda", "medianeda", "modeeda", "stdeda", "diffmaxmodeeda", "diffminmodeeda", "entropyeda"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_electrodermal_activity
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_electrodermal_activity/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-blood-volume-pulse/
|
||||
EMPATICA_BLOOD_VOLUME_PULSE:
|
||||
|
|
@ -516,8 +492,7 @@ EMPATICA_BLOOD_VOLUME_PULSE:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxbvp", "minbvp", "avgbvp", "medianbvp", "modebvp", "stdbvp", "diffmaxmodebvp", "diffminmodebvp", "entropybvp"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/empatica_blood_volume_pulse
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_blood_volume_pulse/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-inter-beat-interval/
|
||||
EMPATICA_INTER_BEAT_INTERVAL:
|
||||
|
|
@ -526,8 +501,7 @@ EMPATICA_INTER_BEAT_INTERVAL:
|
|||
DBDP:
|
||||
COMPUTE: False
|
||||
FEATURES: ["maxibi", "minibi", "avgibi", "medianibi", "modeibi", "stdibi", "diffmaxmodeibi", "diffminmodeibi", "entropyibi"]
|
||||
SRC_FOLDER: "dbdp" # inside src/features/inter_beat_interval
|
||||
SRC_LANGUAGE: "python"
|
||||
SRC_SCRIPT: src/features/empatica_inter_beat_interval/dbdp/main.py
|
||||
|
||||
# See https://www.rapids.science/latest/features/empatica-tags/
|
||||
EMPATICA_TAGS:
|
||||
|
|
|
|||
|
|
@ -40,17 +40,16 @@ required:
|
|||
definitions:
|
||||
PROVIDER:
|
||||
type: object
|
||||
required: [COMPUTE, SRC_FOLDER, SRC_LANGUAGE, FEATURES]
|
||||
required: [COMPUTE, SRC_SCRIPT, FEATURES]
|
||||
properties:
|
||||
COMPUTE:
|
||||
type: boolean
|
||||
FEATURES:
|
||||
type: [array, object]
|
||||
SRC_FOLDER:
|
||||
SRC_SCRIPT:
|
||||
type: string
|
||||
SRC_LANGUAGE:
|
||||
type: string
|
||||
enum: [python, r]
|
||||
pattern: "^.*\\.(py|R)$"
|
||||
|
||||
|
||||
DORYAB_BLUETOOTH_FEATURE:
|
||||
type: object
|
||||
|
|
|
|||
Loading…
Reference in New Issue