import pandas as pd import numpy as np import plotly.express as px from importlib import util from pathlib import Path import yaml # import filter_data_by_segment from src/features/utils/utils.py spec = util.spec_from_file_location("util", str(Path(snakemake.scriptdir).parent / "features" / "utils" / "utils.py")) mod = util.module_from_spec(spec) spec.loader.exec_module(mod) filter_data_by_segment = getattr(mod, "filter_data_by_segment") def getRowCount(sensor_paths, sensor_names, time_segments_labels): sensors_row_count = pd.DataFrame() for sensor_path, sensor_name in zip(sensor_paths, sensor_names): sensor_data = pd.read_csv(sensor_path, usecols=["assigned_segments"]) sensor_row_count = pd.DataFrame() if not sensor_data.empty: for time_segment in time_segments_labels: sensor_data_per_segment = filter_data_by_segment(sensor_data, time_segment) if not sensor_data_per_segment.empty: sensor_row_count = pd.concat([sensor_row_count, sensor_data_per_segment.groupby(["local_segment"])[["local_segment"]].count().rename(columns={"local_segment": sensor_name})], axis=0, sort=False) sensors_row_count = pd.concat([sensors_row_count, sensor_row_count], axis=1, sort=False) sensors_row_count.index.name = "local_segment" sensors_row_count.index = sensors_row_count.index.str.replace(r"_RR\d+SS#", "#") return sensors_row_count def getRowCountHeatmap(data_for_plot, pid, time_segment, html_file): fig = px.timeline(data_for_plot, x_start="local_segment_start_datetime", x_end="local_segment_end_datetime", y="sensor", color="scaled_value", color_continuous_scale="Peach", range_color=[0, 1], opacity=0.7, hover_data={"local_segment_start_datetime":False, "local_segment_end_datetime":False, "local_segment":True, "value":True, "scaled_value":True}) fig.update_layout(title="Heatmap of sensor row count for " + time_segment + " segments. Pid: " + pid +". Label: " + label + "
y-axis shows the included sensors.
x-axis shows time segments.
z-axis (color) shows row count per sensor per segment instance.", xaxis=dict(side="bottom", title="Time Segments"), yaxis=dict(side="left", title="Sensors"), margin=dict(t=160)) html_file.write(fig.to_html(full_html=False, include_plotlyjs="cdn")) return html_file with open(snakemake.input["participant_file"], "r", encoding="utf-8") as f: participant_file = yaml.safe_load(f) label = participant_file["PHONE"]["LABEL"] pid = snakemake.params["pid"] sensor_names = [sensor_name.lower() for sensor_name in snakemake.params["sensor_names"]] time_segments_type = snakemake.params["time_segments_type"] time_segments_labels = pd.read_csv(snakemake.input["time_segments_labels"], header=0)["label"] phone_data_yield = pd.read_csv(snakemake.input["phone_data_yield"], index_col=["local_segment"], parse_dates=["local_segment_start_datetime", "local_segment_end_datetime"]) #index_col=["local_segment_start_datetime"], # make sure the phone_data_yield file contains "phone_data_yield_rapids_ratiovalidyieldedminutes" and "phone_data_yield_rapids_ratiovalidyieldedhours" columns if ("phone_data_yield_rapids_ratiovalidyieldedminutes" not in phone_data_yield.columns) or ("phone_data_yield_rapids_ratiovalidyieldedhours" not in phone_data_yield.columns): raise ValueError("Please make sure [PHONE_DATA_YIELD][RAPIDS][COMPUTE] is True AND [PHONE_DATA_YIELD][RAPIDS][FEATURES] contains [ratiovalidyieldedminutes, ratiovalidyieldedhours].") phone_data_yield.loc[:, ["phone_data_yield_rapids_ratiovalidyieldedminutes", "phone_data_yield_rapids_ratiovalidyieldedhours"]] = phone_data_yield.loc[:, ["phone_data_yield_rapids_ratiovalidyieldedminutes", "phone_data_yield_rapids_ratiovalidyieldedhours"]].round(3).clip(upper=1) sensors_row_count = getRowCount(snakemake.input["all_sensors"], sensor_names, time_segments_labels) data_for_plot = phone_data_yield.rename(columns={"phone_data_yield_rapids_ratiovalidyieldedminutes": "ratiovalidyieldedminutes","phone_data_yield_rapids_ratiovalidyieldedhours": "ratiovalidyieldedhours"}).merge(sensors_row_count, how="left", left_index=True, right_index=True).reset_index() if time_segments_type == "FREQUENCY": data_for_plot["local_segment_label"] = data_for_plot["local_segment_label"].str[:-4] elif time_segments_type == "EVENT": data_for_plot["local_segment_label"] = "event" sensor_names.extend(["ratiovalidyieldedminutes", "ratiovalidyieldedhours"]) html_file = open(snakemake.output[0], "a", encoding="utf-8") for time_segment in set(data_for_plot["local_segment_label"]): if not data_for_plot.empty: data_for_plot_per_segment = data_for_plot[data_for_plot["local_segment_label"] == time_segment] if data_for_plot_per_segment.empty: html_file.write("There are no records of selected sensors in database for " + time_segment + " segments. Pid: " + pid + ". Label: " + label + ".
") else: data_for_plot_per_segment = data_for_plot_per_segment.reindex(columns=["local_segment", "local_segment_start_datetime", "local_segment_end_datetime"] + sensor_names).set_index(["local_segment", "local_segment_start_datetime", "local_segment_end_datetime"]) # except for phone data yield sensor, scale each sensor (row) to the range of [0, 1] scaled_data_for_plot_per_segment = data_for_plot_per_segment.copy() scaled_data_for_plot_per_segment[sensor_names[:-2]] = scaled_data_for_plot_per_segment.fillna(np.nan)[sensor_names[:-2]].apply(lambda x: (x - np.nanmin(x)) / (np.nanmax(x) - np.nanmin(x)) if np.nanmax(x) != np.nanmin(x) else (x / np.nanmin(x)), axis=0) data_for_plot_processed = pd.concat([data_for_plot_per_segment.stack(dropna=False).to_frame("value"), scaled_data_for_plot_per_segment.stack(dropna=False).round(3).to_frame("scaled_value")], axis=1).reset_index().rename(columns={"level_3": "sensor"}) getRowCountHeatmap(data_for_plot_processed, pid, time_segment, html_file) html_file.close()