Add code so new feature providers can be added for the new four sensors
JulioV
parent
8fd1d9dc29
commit
585bf7bc5d
43
Snakefile
43
Snakefile
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@ -147,6 +147,49 @@ for provider in config["PHONE_CONVERSATION"]["PROVIDERS"].keys():
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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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# We can delete these if's as soon as we add feature PROVIDERS to any of these sensors
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if isinstance(config["PHONE_APPLICATIONS_CRASHES"]["PROVIDERS"], dict):
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for provider in config["PHONE_APPLICATIONS_CRASHES"]["PROVIDERS"].keys():
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if config["PHONE_APPLICATIONS_CRASHES"]["PROVIDERS"][provider]["COMPUTE"]:
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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/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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if isinstance(config["PHONE_APPLICATIONS_NOTIFICATIONS"]["PROVIDERS"], dict):
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for provider in config["PHONE_APPLICATIONS_NOTIFICATIONS"]["PROVIDERS"].keys():
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if config["PHONE_APPLICATIONS_NOTIFICATIONS"]["PROVIDERS"][provider]["COMPUTE"]:
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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/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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if isinstance(config["PHONE_KEYBOARD"]["PROVIDERS"], dict):
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for provider in config["PHONE_KEYBOARD"]["PROVIDERS"].keys():
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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/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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if isinstance(config["PHONE_AWARE_LOG"]["PROVIDERS"], dict):
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for provider in config["PHONE_AWARE_LOG"]["PROVIDERS"].keys():
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if config["PHONE_AWARE_LOG"]["PROVIDERS"][provider]["COMPUTE"]:
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files_to_compute.extend(expand("data/raw/{pid}/phone_aware_log_raw.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/raw/{pid}/phone_aware_log_with_datetime.csv", pid=config["PIDS"]))
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files_to_compute.extend(expand("data/interim/{pid}/phone_aware_log_features/phone_aware_log_{language}_{provider_key}.csv", pid=config["PIDS"], language=config["PHONE_AWARE_LOG"]["PROVIDERS"][provider]["SRC_LANGUAGE"].lower(), provider_key=provider.lower()))
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files_to_compute.extend(expand("data/processed/features/{pid}/phone_aware_log.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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for provider in config["PHONE_LOCATIONS"]["PROVIDERS"].keys():
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if config["PHONE_LOCATIONS"]["PROVIDERS"][provider]["COMPUTE"]:
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if config["PHONE_LOCATIONS"]["LOCATIONS_TO_USE"] == "FUSED_RESAMPLED":
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10
config.yaml
10
config.yaml
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@ -88,6 +88,11 @@ PHONE_ACTIVITY_RECOGNITION:
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# See https://www.rapids.science/latest/features/phone-applications-crashes/
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PHONE_APPLICATIONS_CRASHES:
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TABLE: applications_crashes
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APPLICATION_CATEGORIES:
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CATALOGUE_SOURCE: FILE # FILE (genres are read from CATALOGUE_FILE) or GOOGLE (genres are scrapped from the Play Store)
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CATALOGUE_FILE: "data/external/stachl_application_genre_catalogue.csv"
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UPDATE_CATALOGUE_FILE: False # if CATALOGUE_SOURCE is equal to FILE, whether or not to update CATALOGUE_FILE, if CATALOGUE_SOURCE is equal to GOOGLE all scraped genres will be saved to CATALOGUE_FILE
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SCRAPE_MISSING_CATEGORIES: False # whether or not to scrape missing genres, only effective if CATALOGUE_SOURCE is equal to FILE. If CATALOGUE_SOURCE is equal to GOOGLE, all genres are scraped anyway
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PROVIDERS: # None implemented yet but this sensor can be used in PHONE_DATA_YIELD
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# See https://www.rapids.science/latest/features/phone-applications-foreground/
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@ -115,6 +120,11 @@ PHONE_APPLICATIONS_FOREGROUND:
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# See https://www.rapids.science/latest/features/phone-applications-notifications/
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PHONE_APPLICATIONS_NOTIFICATIONS:
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TABLE: applications_notifications
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APPLICATION_CATEGORIES:
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CATALOGUE_SOURCE: FILE # FILE (genres are read from CATALOGUE_FILE) or GOOGLE (genres are scrapped from the Play Store)
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CATALOGUE_FILE: "data/external/stachl_application_genre_catalogue.csv"
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UPDATE_CATALOGUE_FILE: False # if CATALOGUE_SOURCE is equal to FILE, whether or not to update CATALOGUE_FILE, if CATALOGUE_SOURCE is equal to GOOGLE all scraped genres will be saved to CATALOGUE_FILE
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SCRAPE_MISSING_CATEGORIES: False # whether or not to scrape missing genres, only effective if CATALOGUE_SOURCE is equal to FILE. If CATALOGUE_SOURCE is equal to GOOGLE, all genres are scraped anyway
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PROVIDERS: # None implemented yet but this sensor can be used in PHONE_DATA_YIELD
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# See https://www.rapids.science/latest/features/phone-aware-log/
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@ -1,5 +1,8 @@
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# Change Log
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## next version v0.4.0
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- Add four new phone sensors that can be used for PHONE_DATA_YIELD
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- Add code so new feature providers can be added for the new four sensors
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## v0.3.2
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- Update docker and linux instructions to use RSPM binary repo for for faster installation
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- Update CI to create a release on a tagged push that passes the tests
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@ -0,0 +1,14 @@
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# Phone Applications Crashes
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Sensor parameters description for `[PHONE_APPLICATIONS_CRASHES]`:
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|Key | Description |
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|----------------|-----------------------------------------------------------------------------------------------------------------------------------
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|`[TABLE]`| Database table where the applications crashes data is stored
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|`[APPLICATION_CATEGORIES][CATALOGUE_SOURCE]` | `FILE` or `GOOGLE`. If `FILE`, app categories (genres) are read from `[CATALOGUE_FILE]`. If `[GOOGLE]`, app categories (genres) are scrapped from the Play Store
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|`[APPLICATION_CATEGORIES][CATALOGUE_FILE]` | CSV file with a `package_name` and `genre` column. By default we provide the catalogue created by [Stachl et al](../../citation#stachl-applications-crashes) in `data/external/stachl_application_genre_catalogue.csv`
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|`[APPLICATION_CATEGORIES][UPDATE_CATALOGUE_FILE]` | if `[CATALOGUE_SOURCE]` is equal to `FILE`, this flag signals whether or not to update `[CATALOGUE_FILE]`, if `[CATALOGUE_SOURCE]` is equal to `GOOGLE` all scraped genres will be saved to `[CATALOGUE_FILE]`
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|`[APPLICATION_CATEGORIES][SCRAPE_MISSING_CATEGORIES]` | This flag signals whether or not to scrape categories (genres) missing from the `[CATALOGUE_FILE]`. If `[CATALOGUE_SOURCE]` is equal to `GOOGLE`, all genres are scraped anyway (this flag is ignored)
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!!! note
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No feature providers have been implemented for this sensor yet, however you can use its key (`PHONE_APPLICATIONS_CRASHES`) to improve [`PHONE_DATA_YIELD`](../phone-data-yield) or you can [implement your own features](../add-new-features).
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@ -0,0 +1,14 @@
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# Phone Applications Notifications
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Sensor parameters description for `[PHONE_APPLICATIONS_NOTIFICATIONS]`:
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|Key | Description |
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|----------------|-----------------------------------------------------------------------------------------------------------------------------------
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|`[TABLE]`| Database table where the applications notifications data is stored
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|`[APPLICATION_CATEGORIES][CATALOGUE_SOURCE]` | `FILE` or `GOOGLE`. If `FILE`, app categories (genres) are read from `[CATALOGUE_FILE]`. If `[GOOGLE]`, app categories (genres) are scrapped from the Play Store
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|`[APPLICATION_CATEGORIES][CATALOGUE_FILE]` | CSV file with a `package_name` and `genre` column. By default we provide the catalogue created by [Stachl et al](../../citation#stachl-applications-notifications) in `data/external/stachl_application_genre_catalogue.csv`
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|`[APPLICATION_CATEGORIES][UPDATE_CATALOGUE_FILE]` | if `[CATALOGUE_SOURCE]` is equal to `FILE`, this flag signals whether or not to update `[CATALOGUE_FILE]`, if `[CATALOGUE_SOURCE]` is equal to `GOOGLE` all scraped genres will be saved to `[CATALOGUE_FILE]`
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|`[APPLICATION_CATEGORIES][SCRAPE_MISSING_CATEGORIES]` | This flag signals whether or not to scrape categories (genres) missing from the `[CATALOGUE_FILE]`. If `[CATALOGUE_SOURCE]` is equal to `GOOGLE`, all genres are scraped anyway (this flag is ignored)
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!!! note
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No feature providers have been implemented for this sensor yet, however you can use its key (`PHONE_APPLICATIONS_NOTIFICATIONS`) to improve [`PHONE_DATA_YIELD`](../phone-data-yield) or you can [implement your own features](../add-new-features).
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@ -0,0 +1,10 @@
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# Phone Aware
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Sensor parameters description for `[PHONE_AWARE_LOG]`:
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|Key | Description |
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|----------------|-----------------------------------------------------------------------------------------------------------------------------------
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|`[TABLE]`| Database table where the aware data is stored
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!!! note
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No feature providers have been implemented for this sensor yet, however you can use its key (`PHONE_AWARE_LOG`) to improve [`PHONE_DATA_YIELD`](../phone-data-yield) or you can [implement your own features](../add-new-features).
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@ -0,0 +1,10 @@
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# Phone Keyboard
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Sensor parameters description for `[PHONE_KEYBOARD]`:
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|Key | Description |
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|----------------|-----------------------------------------------------------------------------------------------------------------------------------
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|`[TABLE]`| Database table where the keyboard data is stored
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!!! note
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No feature providers have been implemented for this sensor yet, however you can use its key (`PHONE_KEYBOARD`) to improve [`PHONE_DATA_YIELD`](../phone-data-yield) or you can [implement your own features](../add-new-features).
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@ -82,12 +82,16 @@ nav:
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- Phone:
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- Phone Accelerometer: features/phone-accelerometer.md
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- Phone Activity Recognition: features/phone-activity-recognition.md
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- Phone Applications Crashes: features/phone-applications-crashes.md
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- Phone Applications Foreground: features/phone-applications-foreground.md
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- Phone Applications Notifications: features/phone-applications-notifications.md
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- Phone Aware Log: features/phone-aware-log.md
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- Phone Battery: features/phone-battery.md
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- Phone Bluetooth: features/phone-bluetooth.md
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- Phone Calls: features/phone-calls.md
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- Phone Conversation: features/phone-conversation.md
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- Phone Data Yield: features/phone-data-yield.md
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- Phone Keyboard: features/phone-keyboard.md
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- Phone Light: features/phone-light.md
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- Phone Locations: features/phone-locations.md
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- Phone Messages: features/phone-messages.md
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@ -96,6 +96,32 @@ rule phone_activity_recognition_r_features:
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script:
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"../src/features/entry.R"
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rule phone_applications_crashes_python_features:
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input:
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sensor_data = "data/raw/{pid}/phone_applications_crashes_with_datetime_with_categories.csv",
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time_segments_labels = "data/interim/time_segments/{pid}_time_segments_labels.csv"
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params:
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provider = lambda wildcards: config["PHONE_APPLICATIONS_CRASHES"]["PROVIDERS"][wildcards.provider_key.upper()],
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provider_key = "{provider_key}",
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sensor_key = "phone_applications_crashes"
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output:
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"data/interim/{pid}/phone_applications_crashes_features/phone_applications_crashes_python_{provider_key}.csv"
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script:
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"../src/features/entry.py"
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rule phone_applications_crashes_r_features:
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input:
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sensor_data = "data/raw/{pid}/phone_applications_crashes_with_datetime_with_categories.csv",
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time_segments_labels = "data/interim/time_segments/{pid}_time_segments_labels.csv"
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params:
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provider = lambda wildcards: config["PHONE_APPLICATIONS_CRASHES"]["PROVIDERS"][wildcards.provider_key.upper()],
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provider_key = "{provider_key}",
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sensor_key = "phone_applications_crashes"
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output:
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"data/interim/{pid}/phone_applications_crashes_features/phone_applications_crashes_r_{provider_key}.csv"
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script:
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"../src/features/entry.R"
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rule phone_applications_foreground_python_features:
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input:
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sensor_data = "data/raw/{pid}/phone_applications_foreground_with_datetime_with_categories.csv",
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@ -122,6 +148,58 @@ rule phone_applications_foreground_r_features:
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script:
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"../src/features/entry.R"
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rule phone_applications_notifications_python_features:
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input:
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sensor_data = "data/raw/{pid}/phone_applications_notifications_with_datetime_with_categories.csv",
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time_segments_labels = "data/interim/time_segments/{pid}_time_segments_labels.csv"
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params:
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provider = lambda wildcards: config["PHONE_APPLICATIONS_NOTIFICATIONS"]["PROVIDERS"][wildcards.provider_key.upper()],
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provider_key = "{provider_key}",
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sensor_key = "phone_applications_notifications"
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output:
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"data/interim/{pid}/phone_applications_notifications_features/phone_applications_notifications_python_{provider_key}.csv"
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script:
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"../src/features/entry.py"
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rule phone_applications_notifications_r_features:
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input:
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sensor_data = "data/raw/{pid}/phone_applications_notifications_with_datetime_with_categories.csv",
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time_segments_labels = "data/interim/time_segments/{pid}_time_segments_labels.csv"
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params:
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provider = lambda wildcards: config["PHONE_APPLICATIONS_NOTIFICATIONS"]["PROVIDERS"][wildcards.provider_key.upper()],
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provider_key = "{provider_key}",
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sensor_key = "phone_applications_notifications"
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output:
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"data/interim/{pid}/phone_applications_notifications_features/phone_applications_notifications_r_{provider_key}.csv"
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script:
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"../src/features/entry.R"
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rule phone_aware_log_python_features:
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input:
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sensor_data = "data/raw/{pid}/phone_aware_log_with_datetime.csv",
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time_segments_labels = "data/interim/time_segments/{pid}_time_segments_labels.csv"
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params:
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provider = lambda wildcards: config["PHONE_AWARE_LOG"]["PROVIDERS"][wildcards.provider_key.upper()],
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provider_key = "{provider_key}",
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sensor_key = "phone_aware_log"
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output:
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"data/interim/{pid}/phone_aware_log_features/phone_aware_log_python_{provider_key}.csv"
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script:
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"../src/features/entry.py"
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rule phone_aware_log_r_features:
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input:
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sensor_data = "data/raw/{pid}/phone_aware_log_with_datetime.csv",
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time_segments_labels = "data/interim/time_segments/{pid}_time_segments_labels.csv"
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params:
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provider = lambda wildcards: config["PHONE_AWARE_LOG"]["PROVIDERS"][wildcards.provider_key.upper()],
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provider_key = "{provider_key}",
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sensor_key = "phone_aware_log"
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output:
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"data/interim/{pid}/phone_aware_log_features/phone_aware_log_r_{provider_key}.csv"
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script:
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"../src/features/entry.R"
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rule battery_episodes:
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input:
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"data/raw/{pid}/phone_battery_raw.csv"
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@ -236,6 +314,32 @@ rule conversation_r_features:
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script:
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"../src/features/entry.R"
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rule phone_keyboard_python_features:
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input:
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sensor_data = "data/raw/{pid}/phone_keyboard_with_datetime.csv",
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time_segments_labels = "data/interim/time_segments/{pid}_time_segments_labels.csv"
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params:
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provider = lambda wildcards: config["PHONE_KEYBOARD"]["PROVIDERS"][wildcards.provider_key.upper()],
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provider_key = "{provider_key}",
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sensor_key = "phone_keyboard"
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output:
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"data/interim/{pid}/phone_keyboard_features/phone_keyboard_python_{provider_key}.csv"
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script:
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"../src/features/entry.py"
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rule phone_keyboard_r_features:
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input:
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sensor_data = "data/raw/{pid}/phone_keyboard_with_datetime.csv",
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time_segments_labels = "data/interim/time_segments/{pid}_time_segments_labels.csv"
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params:
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provider = lambda wildcards: config["PHONE_KEYBOARD"]["PROVIDERS"][wildcards.provider_key.upper()],
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provider_key = "{provider_key}",
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sensor_key = "phone_keyboard"
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output:
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"data/interim/{pid}/phone_keyboard_features/phone_keyboard_r_{provider_key}.csv"
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script:
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"../src/features/entry.R"
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rule phone_light_python_features:
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input:
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sensor_data = "data/raw/{pid}/phone_light_with_datetime.csv",
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@ -163,14 +163,14 @@ rule resample_episodes_with_datetime:
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rule phone_application_categories:
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input:
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"data/raw/{pid}/phone_applications_foreground_with_datetime.csv"
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"data/raw/{pid}/phone_applications_{type}_with_datetime.csv"
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params:
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catalogue_source = config["PHONE_APPLICATIONS_FOREGROUND"]["APPLICATION_CATEGORIES"]["CATALOGUE_SOURCE"],
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catalogue_file = config["PHONE_APPLICATIONS_FOREGROUND"]["APPLICATION_CATEGORIES"]["CATALOGUE_FILE"],
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update_catalogue_file = config["PHONE_APPLICATIONS_FOREGROUND"]["APPLICATION_CATEGORIES"]["UPDATE_CATALOGUE_FILE"],
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scrape_missing_genres = config["PHONE_APPLICATIONS_FOREGROUND"]["APPLICATION_CATEGORIES"]["SCRAPE_MISSING_CATEGORIES"]
|
||||
catalogue_source = lambda wildcards: config["PHONE_APPLICATIONS_" + str(wildcards.type).upper()]["APPLICATION_CATEGORIES"]["CATALOGUE_SOURCE"],
|
||||
catalogue_file = lambda wildcards: config["PHONE_APPLICATIONS_" + str(wildcards.type).upper()]["APPLICATION_CATEGORIES"]["CATALOGUE_FILE"],
|
||||
update_catalogue_file = lambda wildcards: config["PHONE_APPLICATIONS_" + str(wildcards.type).upper()]["APPLICATION_CATEGORIES"]["UPDATE_CATALOGUE_FILE"],
|
||||
scrape_missing_genres = lambda wildcards: config["PHONE_APPLICATIONS_" + str(wildcards.type).upper()]["APPLICATION_CATEGORIES"]["SCRAPE_MISSING_CATEGORIES"]
|
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output:
|
||||
"data/raw/{pid}/phone_applications_foreground_with_datetime_with_categories.csv"
|
||||
"data/raw/{pid}/phone_applications_{type}_with_datetime_with_categories.csv"
|
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script:
|
||||
"../src/data/application_categories.R"
|
||||
|
||||
|
|
|
|||
Loading…
Reference in New Issue