From 5a4696c548128da00b052361319f08ab60b08de3 Mon Sep 17 00:00:00 2001 From: Primoz Date: Wed, 6 Jul 2022 11:30:18 +0000 Subject: [PATCH] Misc. changes --- config.yaml | 36 +++++++++++++++++------------------ tests/scripts/missing_vals.py | 4 ++-- 2 files changed, 20 insertions(+), 20 deletions(-) diff --git a/config.yaml b/config.yaml index 0ab0bcba..8d2ba2cf 100644 --- a/config.yaml +++ b/config.yaml @@ -85,7 +85,7 @@ PHONE_ACTIVITY_RECOGNITION: EPISODE_THRESHOLD_BETWEEN_ROWS: 5 # minutes. Max time difference for two consecutive rows to be considered within the same AR episode. PROVIDERS: RAPIDS: - COMPUTE: True + COMPUTE: False FEATURES: ["count", "mostcommonactivity", "countuniqueactivities", "durationstationary", "durationmobile", "durationvehicle"] ACTIVITY_CLASSES: STATIONARY: ["still", "tilting"] @@ -114,7 +114,7 @@ PHONE_APPLICATIONS_FOREGROUND: 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 PROVIDERS: RAPIDS: - COMPUTE: True + COMPUTE: False INCLUDE_EPISODE_FEATURES: True SINGLE_CATEGORIES: ["all", "email"] MULTIPLE_CATEGORIES: @@ -149,7 +149,7 @@ PHONE_BATTERY: EPISODE_THRESHOLD_BETWEEN_ROWS: 30 # minutes. Max time difference for two consecutive rows to be considered within the same battery episode. PROVIDERS: RAPIDS: - COMPUTE: True + COMPUTE: False FEATURES: ["countdischarge", "sumdurationdischarge", "countcharge", "sumdurationcharge", "avgconsumptionrate", "maxconsumptionrate"] SRC_SCRIPT: src/features/phone_battery/rapids/main.py @@ -158,12 +158,12 @@ PHONE_BLUETOOTH: CONTAINER: bluetooth PROVIDERS: RAPIDS: - COMPUTE: True + COMPUTE: False FEATURES: ["countscans", "uniquedevices", "countscansmostuniquedevice"] SRC_SCRIPT: src/features/phone_bluetooth/rapids/main.R DORYAB: - COMPUTE: True + COMPUTE: False FEATURES: ALL: DEVICES: ["countscans", "uniquedevices", "meanscans", "stdscans"] @@ -184,7 +184,7 @@ PHONE_CALLS: CONTAINER: call PROVIDERS: RAPIDS: - COMPUTE: True + COMPUTE: False FEATURES_TYPE: EPISODES # EVENTS or EPISODES CALL_TYPES: [missed, incoming, outgoing] FEATURES: @@ -227,7 +227,7 @@ PHONE_DATA_YIELD: PHONE_WIFI_VISIBLE] PROVIDERS: RAPIDS: - COMPUTE: True + 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_SCRIPT: src/features/phone_data_yield/rapids/main.R @@ -255,7 +255,7 @@ PHONE_LIGHT: CONTAINER: light_sensor PROVIDERS: RAPIDS: - COMPUTE: True + COMPUTE: False FEATURES: ["count", "maxlux", "minlux", "avglux", "medianlux", "stdlux"] SRC_SCRIPT: src/features/phone_light/rapids/main.py @@ -269,7 +269,7 @@ PHONE_LOCATIONS: PROVIDERS: DORYAB: - COMPUTE: True + COMPUTE: False FEATURES: ["locationvariance","loglocationvariance","totaldistance","avgspeed","varspeed", "numberofsignificantplaces","numberlocationtransitions","radiusgyration","timeattop1location","timeattop2location","timeattop3location","movingtostaticratio","outlierstimepercent","maxlengthstayatclusters","minlengthstayatclusters","avglengthstayatclusters","stdlengthstayatclusters","locationentropy","normalizedlocationentropy","timeathome", "homelabel"] DBSCAN_EPS: 100 # meters DBSCAN_MINSAMPLES: 5 @@ -284,7 +284,7 @@ PHONE_LOCATIONS: SRC_SCRIPT: src/features/phone_locations/doryab/main.py BARNETT: - COMPUTE: True + COMPUTE: False FEATURES: ["hometime","disttravelled","rog","maxdiam","maxhomedist","siglocsvisited","avgflightlen","stdflightlen","avgflightdur","stdflightdur","probpause","siglocentropy","circdnrtn","wkenddayrtn"] 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 @@ -302,7 +302,7 @@ PHONE_MESSAGES: CONTAINER: sms PROVIDERS: RAPIDS: - COMPUTE: True + COMPUTE: False MESSAGES_TYPES : [received, sent] FEATURES: received: [count, distinctcontacts, timefirstmessage, timelastmessage, countmostfrequentcontact] @@ -314,7 +314,7 @@ PHONE_SCREEN: CONTAINER: screen PROVIDERS: RAPIDS: - COMPUTE: True + COMPUTE: False REFERENCE_HOUR_FIRST_USE: 0 IGNORE_EPISODES_SHORTER_THAN: 0 # in minutes, set to 0 to disable IGNORE_EPISODES_LONGER_THAN: 360 # in minutes, set to 0 to disable @@ -336,7 +336,7 @@ PHONE_WIFI_VISIBLE: CONTAINER: wifi PROVIDERS: RAPIDS: - COMPUTE: True + COMPUTE: False FEATURES: ["countscans", "uniquedevices", "countscansmostuniquedevice"] SRC_SCRIPT: src/features/phone_wifi_visible/rapids/main.R @@ -506,7 +506,7 @@ EMPATICA_ACCELEROMETER: FEATURES: ["maxmagnitude", "minmagnitude", "avgmagnitude", "medianmagnitude", "stdmagnitude"] SRC_SCRIPT: src/features/empatica_accelerometer/dbdp/main.py CR: - COMPUTE: True + COMPUTE: False FEATURES: ["totalMagnitudeBand", "absoluteMeanBand", "varianceBand"] # Acc features WINDOWS: COMPUTE: True @@ -534,7 +534,7 @@ EMPATICA_TEMPERATURE: FEATURES: ["maxtemp", "mintemp", "avgtemp", "mediantemp", "modetemp", "stdtemp", "diffmaxmodetemp", "diffminmodetemp", "entropytemp"] SRC_SCRIPT: src/features/empatica_temperature/dbdp/main.py CR: - COMPUTE: True + COMPUTE: False FEATURES: ["maximum", "minimum", "meanAbsChange", "longestStrikeAboveMean", "longestStrikeBelowMean", "stdDev", "median", "meanChange", "sumSquared", "squareSumOfComponent", "sumOfSquareComponents"] WINDOWS: @@ -564,7 +564,7 @@ EMPATICA_ELECTRODERMAL_ACTIVITY: WINDOW_LENGTH: 60 # specify window length in seconds SECOND_ORDER_FEATURES: ['mean', 'median', 'sd', 'nlargest', 'nsmallest', count_windows, eda_num_peaks_non_zero] STANDARDIZE_FEATURES: True - IMPUTE_NANS: False + IMPUTE_NANS: True SRC_SCRIPT: src/features/empatica_electrodermal_activity/cr/main.py # See https://www.rapids.science/latest/features/empatica-blood-volume-pulse/ @@ -576,7 +576,7 @@ EMPATICA_BLOOD_VOLUME_PULSE: FEATURES: ["maxbvp", "minbvp", "avgbvp", "medianbvp", "modebvp", "stdbvp", "diffmaxmodebvp", "diffminmodebvp", "entropybvp"] SRC_SCRIPT: src/features/empatica_blood_volume_pulse/dbdp/main.py CR: - COMPUTE: True + COMPUTE: False FEATURES: ['meanHr', 'ibi', 'sdnn', 'sdsd', 'rmssd', 'pnn20', 'pnn50', 'sd', 'sd2', 'sd1/sd2', 'numRR', # Time features 'VLF', 'LF', 'LFnorm', 'HF', 'HFnorm', 'LF/HF', 'fullIntegral'] # Freq features WINDOWS: @@ -595,7 +595,7 @@ EMPATICA_INTER_BEAT_INTERVAL: FEATURES: ["maxibi", "minibi", "avgibi", "medianibi", "modeibi", "stdibi", "diffmaxmodeibi", "diffminmodeibi", "entropyibi"] SRC_SCRIPT: src/features/empatica_inter_beat_interval/dbdp/main.py CR: - COMPUTE: True + COMPUTE: False FEATURES: ['meanHr', 'ibi', 'sdnn', 'sdsd', 'rmssd', 'pnn20', 'pnn50', 'sd', 'sd2', 'sd1/sd2', 'numRR', # Time features 'VLF', 'LF', 'LFnorm', 'HF', 'HFnorm', 'LF/HF', 'fullIntegral'] # Freq features PATCH_WITH_BVP: True diff --git a/tests/scripts/missing_vals.py b/tests/scripts/missing_vals.py index 9965bec3..acbae0bb 100644 --- a/tests/scripts/missing_vals.py +++ b/tests/scripts/missing_vals.py @@ -3,8 +3,8 @@ import seaborn as sns import matplotlib.pyplot as plt -participant = "p02" -all_sensors = ["ibi", "bvp"]#["eda", "bvp", "ibi", "temp", "acc"] +participant = "p031" +all_sensors = ["eda", "bvp", "ibi", "temp", "acc"] for sensor in all_sensors: