import pandas as pd from datetime import datetime import itertools def featuresFullNames(intraday_features_to_compute, sleep_levels_to_compute, sleep_types_to_compute, levels_include_all_groups): features_fullname = ["local_segment"] sleep_level_with_group = [] for sleep_level_group in sleep_levels_to_compute: for sleep_level in sleep_levels_to_compute[sleep_level_group]: sleep_level_with_group.append(sleep_level + sleep_level_group.lower()) if levels_include_all_groups: features_fullname.extend([x[0] + x[1] + x[2] for x in itertools.product(intraday_features_to_compute["LEVELS_AND_TYPES"], sleep_level_with_group + ["all"], sleep_types_to_compute)]) else: features_fullname.extend([x[0] + x[1] + x[2] for x in itertools.product(intraday_features_to_compute["LEVELS_AND_TYPES"], sleep_level_with_group, sleep_types_to_compute)]) if "ACROSS_LEVELS" in intraday_features_to_compute["RATIOS_SCOPE"]: features_fullname.extend(["ratio" + x[0] + x[1] for x in itertools.product(intraday_features_to_compute["RATIOS_TYPE"], sleep_level_with_group)]) if "ACROSS_TYPES" in intraday_features_to_compute["RATIOS_SCOPE"] and "main" in sleep_types_to_compute: features_fullname.extend(["ratio" + x + "main" for x in intraday_features_to_compute["RATIOS_TYPE"]]) if "WITHIN_LEVELS" in intraday_features_to_compute["RATIOS_SCOPE"] and "main" in sleep_types_to_compute: features_fullname.extend(["ratio" + x[0] + "mainwithin" + x[1] for x in itertools.product(intraday_features_to_compute["RATIOS_TYPE"], sleep_level_with_group)]) if "WITHIN_TYPES" in intraday_features_to_compute["RATIOS_SCOPE"]: features_fullname.extend(["ratio" + x[0] + x[1] + "within" + x[2] for x in itertools.product(intraday_features_to_compute["RATIOS_TYPE"], sleep_level_with_group, set(sleep_types_to_compute) & set(["main", "nap"]))]) return features_fullname def mergeSleepEpisodes(sleep_data, cols_for_groupby): sleep_episodes = pd.DataFrame(columns=["local_segment", "duration", "start_timestamp", "end_timestamp", "local_start_date_time", "local_end_date_time"]) if cols_for_groupby and (not sleep_data.empty): sleep_data = sleep_data.groupby(by=cols_for_groupby, sort=False) sleep_episodes = sleep_data[["duration"]].sum() sleep_episodes["start_timestamp"] = sleep_data["start_timestamp"].first() sleep_episodes["end_timestamp"] = sleep_data["end_timestamp"].last() sleep_episodes["local_start_date_time"] = sleep_data["local_start_date_time"].first() sleep_episodes["local_end_date_time"] = sleep_data["local_end_date_time"].last() sleep_episodes.reset_index(inplace=True, drop=False) return sleep_episodes def statsFeatures(sleep_episodes, features, episode_type): episode_features = pd.DataFrame(columns=[feature + episode_type for feature in features]) if sleep_episodes.empty: return episode_features if "countepisode" in features: episode_features["countepisode" + episode_type] = sleep_episodes[["local_segment", "duration"]].groupby(["local_segment"])["duration"].count() if "sumduration" in features: episode_features["sumduration" + episode_type] = sleep_episodes[["local_segment", "duration"]].groupby(["local_segment"])["duration"].sum() if "maxduration" in features: episode_features["maxduration" + episode_type] = sleep_episodes[["local_segment", "duration"]].groupby(["local_segment"])["duration"].max() if "minduration" in features: episode_features["minduration" + episode_type] = sleep_episodes[["local_segment", "duration"]].groupby(["local_segment"])["duration"].min() if "avgduration" in features: episode_features["avgduration" + episode_type] = sleep_episodes[["local_segment", "duration"]].groupby(["local_segment"])["duration"].mean() if "medianduration" in features: episode_features["medianduration" + episode_type] = sleep_episodes[["local_segment", "duration"]].groupby(["local_segment"])["duration"].median() if "stdduration" in features: episode_features["stdduration" + episode_type] = sleep_episodes[["local_segment", "duration"]].groupby(["local_segment"])["duration"].std() return episode_features def allStatsFeatures(sleep_data, base_sleep_levels, base_sleep_types, features, sleep_intraday_features): # For CLASSIC for sleep_level, sleep_type in itertools.product(base_sleep_levels["CLASSIC"] + ["all"], base_sleep_types): sleep_episodes_classic = sleep_data[sleep_data["type"] == "classic"] sleep_episodes_classic = sleep_episodes_classic[sleep_episodes_classic["is_main_sleep"] == (1 if sleep_type == "main" else 0)] if sleep_type != "all" else sleep_episodes_classic sleep_episodes_classic = sleep_episodes_classic[sleep_episodes_classic["level"] == sleep_level] if sleep_level != "all" else sleep_episodes_classic sleep_intraday_features = pd.concat([sleep_intraday_features, statsFeatures(sleep_episodes_classic, features, sleep_level + "classic" + sleep_type)], axis=1) # For STAGES for sleep_level, sleep_type in itertools.product(base_sleep_levels["STAGES"] + ["all"], base_sleep_types): sleep_episodes_stages = sleep_data[sleep_data["type"] == "stages"] sleep_episodes_stages = sleep_episodes_stages[sleep_episodes_stages["is_main_sleep"] == (1 if sleep_type == "main" else 0)] if sleep_type != "all" else sleep_episodes_stages sleep_episodes_stages = sleep_episodes_stages[sleep_episodes_stages["level"] == sleep_level] if sleep_level != "all" else sleep_episodes_stages sleep_intraday_features = pd.concat([sleep_intraday_features, statsFeatures(sleep_episodes_stages, features, sleep_level + "stages" + sleep_type)], axis=1) # For UNIFIED for sleep_level, sleep_type in itertools.product(base_sleep_levels["UNIFIED"] + ["all"], base_sleep_types): sleep_episodes_unified = sleep_data[sleep_data["is_main_sleep"] == (1 if sleep_type == "main" else 0)] if sleep_type != "all" else sleep_data sleep_episodes_unified = sleep_episodes_unified[sleep_episodes_unified["unified_level"] == (0 if sleep_level == "awake" else 1)] if sleep_level != "all" else sleep_episodes_unified sleep_episodes_unified = mergeSleepEpisodes(sleep_episodes_unified, ["local_segment", "unified_level_episode_id"]) sleep_intraday_features = pd.concat([sleep_intraday_features, statsFeatures(sleep_episodes_unified, features, sleep_level + "unified" + sleep_type)], axis=1) # Ignore the levels (e.g. countepisode[all][main]) for sleep_type in base_sleep_types: sleep_episodes_none = sleep_data[sleep_data["is_main_sleep"] == (1 if sleep_type == "main" else 0)] if sleep_type != "all" else sleep_data sleep_episodes_none = mergeSleepEpisodes(sleep_episodes_none, ["local_segment", "type_episode_id"]) sleep_intraday_features = pd.concat([sleep_intraday_features, statsFeatures(sleep_episodes_none, features, "all" + sleep_type)], axis=1) sleep_intraday_features.fillna(0, inplace=True) return sleep_intraday_features # Since all the stats features have been computed no matter they are requested or not, # we can pick the related features to calculate the RATIOS features directly. # Take ACROSS_LEVELS RATIOS features as an example: # ratiocount[remstages] = countepisode[remstages][all] / countepisode[all][all] def ratiosFeatures(sleep_intraday_features, ratios_types, ratios_scopes, sleep_levels, sleep_types): # Put sleep_level_group and sleep_level together. # For example: # input (sleep_levels): {"CLASSIC": ["awake", "restless", "asleep"], "UNIFIED": ["awake", "asleep"]} # output (sleep_level_with_group): [("classic", "awake"), ("classic", "restless"), ("classic", "asleep"), ("unified", "awake"), ("unified", "asleep")] sleep_level_with_group = [] for sleep_level_group in sleep_levels: for sleep_level in sleep_levels[sleep_level_group]: sleep_level_with_group.append((sleep_level_group.lower(), sleep_level)) # ACROSS LEVELS if "ACROSS_LEVELS" in ratios_scopes: # Get the cross product of ratios_types and sleep_level_with_group. # For example: # input: ratios_types is ["count", "duration"], sleep_level_with_group is [("classic", "awake"), ("classic", "restless"), ("unified", "asleep")] # output: # 1) ratios_type: "count", sleep_levels_combined: ("classic", "awake") # 2) ratios_type: "count", sleep_levels_combined: ("classic", "restless") # 3) ratios_type: "count", sleep_levels_combined: ("unified", "asleep") # 4) ratios_type: "duration", sleep_levels_combined: ("classic", "awake") # 5) ratios_type: "duration", sleep_levels_combined: ("classic", "restless") # 6) ratios_type: "duration", sleep_levels_combined: ("unified", "asleep") for ratios_type, sleep_levels_combined in itertools.product(ratios_types, sleep_level_with_group): sleep_level_group, sleep_level = sleep_levels_combined[0], sleep_levels_combined[1] agg_func = "countepisode" if ratios_type == "count" else "sumduration" across_levels = (sleep_intraday_features[agg_func + sleep_level + sleep_level_group + "all"] / sleep_intraday_features[agg_func + "all" + sleep_level_group + "all"]).to_frame().rename(columns={0: "ratio" + ratios_type + sleep_level + sleep_level_group}) sleep_intraday_features = pd.concat([sleep_intraday_features, across_levels], axis=1) # ACROSS TYPES if "ACROSS_TYPES" in ratios_scopes: for ratios_type in ratios_types: agg_func = "countepisode" if ratios_type == "count" else "sumduration" # We do not provide the ratio for nap because is complementary. across_types = (sleep_intraday_features[agg_func + "allmain"] / sleep_intraday_features[agg_func + "allall"]).to_frame().rename(columns={0: "ratio" + ratios_type + "main"}) sleep_intraday_features = pd.concat([sleep_intraday_features, across_types], axis=1) # Get the cross product of ratios_types, sleep_level_with_group, and sleep_types. # For example: # input: # ratios_types is ["count", "duration"] # sleep_level_with_group is [("classic", "awake"), ("unified", "asleep")] # sleep_types is ["main", "nap"] # output: # 1) ratios_type: "count", sleep_levels_combined: ("classic", "awake"), sleep_type: "main" # 2) ratios_type: "count", sleep_levels_combined: ("classic", "awake"), sleep_type: "nap" # 3) ratios_type: "count", sleep_levels_combined: ("unified", "asleep"), sleep_type: "main" # 4) ratios_type: "count", sleep_levels_combined: ("unified", "asleep"), sleep_type: "nap" # 5) ratios_type: "duration", sleep_levels_combined: ("classic", "awake"), sleep_type: "main" # 6) ratios_type: "duration", sleep_levels_combined: ("classic", "awake"), sleep_type: "nap" # 7) ratios_type: "duration", sleep_levels_combined: ("unified", "asleep"), sleep_type: "main" # 8) ratios_type: "duration", sleep_levels_combined: ("unified", "asleep"), sleep_type: "nap" for ratios_type, sleep_levels_combined, sleep_type in itertools.product(ratios_types, sleep_level_with_group, sleep_types): # "all" sleep type will not be cosidered for any ratios features since it will be 1 all the time if sleep_type == "all": continue sleep_level_group, sleep_level = sleep_levels_combined[0], sleep_levels_combined[1] agg_func = "countepisode" if ratios_type == "count" else "sumduration" # WITHIN LEVELS if ("WITHIN_LEVELS" in ratios_scopes) and (sleep_type == "main"): # We do not provide the ratio for nap because is complementary. within_levels = (sleep_intraday_features[agg_func + sleep_level + sleep_level_group + sleep_type] / sleep_intraday_features[agg_func + sleep_level + sleep_level_group + "all"]).to_frame().rename(columns={0: "ratio" + ratios_type + sleep_type + "within" + sleep_level + sleep_level_group}) sleep_intraday_features = pd.concat([sleep_intraday_features, within_levels], axis=1) # WITHIN TYPES if "WITHIN_TYPES" in ratios_scopes: within_types = (sleep_intraday_features[agg_func + sleep_level + sleep_level_group + sleep_type] / sleep_intraday_features[agg_func + "all" + sleep_level_group + sleep_type]).to_frame().rename(columns={0: "ratio" + ratios_type + sleep_level + sleep_level_group + "within" + sleep_type}) sleep_intraday_features = pd.concat([sleep_intraday_features, within_types], axis=1) return sleep_intraday_features def rapids_features(sensor_data_files, time_segment, provider, filter_data_by_segment, *args, **kwargs): sleep_intraday_data = pd.read_csv(sensor_data_files["sensor_data"]) requested_intraday_features = provider["FEATURES"] levels_include_all_groups = provider["SLEEP_LEVELS"]["INCLUDE_ALL_GROUPS"] requested_sleep_levels = provider["SLEEP_LEVELS"] requested_sleep_types = provider["SLEEP_TYPES"] # Name of the features this function can compute base_intraday_features = {"LEVELS_AND_TYPES": ["countepisode", "sumduration", "maxduration", "minduration", "avgduration", "medianduration", "stdduration"], "RATIOS_TYPE": ["count", "duration"], "RATIOS_SCOPE": ["ACROSS_LEVELS", "ACROSS_TYPES", "WITHIN_LEVELS", "WITHIN_TYPES"]} base_sleep_levels = {"CLASSIC": ["awake", "restless", "asleep"], "STAGES": ["wake", "deep", "light", "rem"], "UNIFIED": ["awake", "asleep"]} base_sleep_types = ["main", "nap", "all"] # The subset of requested features this function can compute intraday_features_to_compute = {key: list(set(requested_intraday_features[key]) & set(base_intraday_features[key])) for key in requested_intraday_features if key in base_intraday_features} sleep_levels_to_compute = {key: list(set(requested_sleep_levels[key]) & set(base_sleep_levels[key])) for key in requested_sleep_levels if key in base_sleep_levels} sleep_types_to_compute = list(set(requested_sleep_types) & set(base_sleep_types)) # Full names features_fullnames = featuresFullNames(intraday_features_to_compute, sleep_levels_to_compute, sleep_types_to_compute, levels_include_all_groups) sleep_intraday_features = pd.DataFrame(columns=features_fullnames) sleep_intraday_data = filter_data_by_segment(sleep_intraday_data, time_segment) # While level_episode_id is based on levels provided by Fitbit (classic & stages), unified_level_episode_id is based on unified_level. sleep_intraday_data.insert(3, "unified_level_episode_id", (sleep_intraday_data[["type_episode_id", "unified_level"]] != sleep_intraday_data[["type_episode_id", "unified_level"]].shift()).any(axis=1).cumsum()) if not sleep_intraday_data.empty: sleep_intraday_features = pd.DataFrame() # ALL LEVELS AND TYPES: compute all stats features no matter they are requested or not sleep_intraday_features = allStatsFeatures(sleep_intraday_data, base_sleep_levels, base_sleep_types, base_intraday_features["LEVELS_AND_TYPES"], sleep_intraday_features) # RATIOS: only compute requested features sleep_intraday_features = ratiosFeatures(sleep_intraday_features, intraday_features_to_compute["RATIOS_TYPE"], intraday_features_to_compute["RATIOS_SCOPE"], sleep_levels_to_compute, sleep_types_to_compute) # Reset index and discard features which are not requested by user sleep_intraday_features.index.name = "local_segment" sleep_intraday_features.reset_index(inplace=True) sleep_intraday_features = sleep_intraday_features[features_fullnames] return sleep_intraday_features