Few changes during addition to file structure.

calculatingfeatures

@@ -1 +0,0 @@
-Subproject commit 98e6207ecc23a23b1f621a11f28eb87cbfb7f9da

config.yaml

@@ -3,7 +3,7 @@
 ########################################################################################################################
 
 # See https://www.rapids.science/latest/setup/configuration/#participant-files
-PIDS: [p02] #p01, p02, p03]
+PIDS: [p031] #p01, p02, p03]
 
 # See https://www.rapids.science/latest/setup/configuration/#automatic-creation-of-participant-files
 CREATE_PARTICIPANT_FILES:
@@ -80,12 +80,12 @@ PHONE_ACCELEROMETER:
 # See https://www.rapids.science/latest/features/phone-activity-recognition/
 PHONE_ACTIVITY_RECOGNITION:
   CONTAINER: 
-    ANDROID: plugin_google_activity_recognition
+    ANDROID: google_ar
     IOS: plugin_ios_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: False
+      COMPUTE: True
       FEATURES: ["count", "mostcommonactivity", "countuniqueactivities", "durationstationary", "durationmobile", "durationvehicle"]
       ACTIVITY_CLASSES:
         STATIONARY: ["still", "tilting"]
@@ -105,16 +105,17 @@ PHONE_APPLICATIONS_CRASHES:
 
 # See https://www.rapids.science/latest/features/phone-applications-foreground/
 PHONE_APPLICATIONS_FOREGROUND:
-  CONTAINER: applications_foreground
+  CONTAINER: applications
   APPLICATION_CATEGORIES:
     CATALOGUE_SOURCE: FILE # FILE (genres are read from CATALOGUE_FILE) or GOOGLE (genres are scrapped from the Play Store)
     CATALOGUE_FILE: "data/external/stachl_application_genre_catalogue.csv"
+    PACKAGE_NAMES_HASHED: True
     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
     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: False
+      COMPUTE: True
-      INCLUDE_EPISODE_FEATURES: False
+      INCLUDE_EPISODE_FEATURES: True
       SINGLE_CATEGORIES: ["all", "email"]
       MULTIPLE_CATEGORIES:
         social: ["socialnetworks", "socialmediatools"]
@@ -124,7 +125,7 @@ PHONE_APPLICATIONS_FOREGROUND:
         dating: ["com.tinder", "com.relance.happycouple", "com.kiwi.joyride"]
       SINGLE_APPS: ["top1global", "com.facebook.moments", "com.google.android.youtube", "com.twitter.android"] # There's no entropy for single apps
       EXCLUDED_CATEGORIES: []
-      EXCLUDED_APPS: ["com.fitbit.FitbitMobile", "com.aware.plugin.upmc.cancer"]
+      EXCLUDED_APPS: ["com.fitbit.FitbitMobile", "com.aware.plugin.upmc.cancer"] # TODO list system apps?
       FEATURES: 
         APP_EVENTS: ["countevent", "timeoffirstuse", "timeoflastuse", "frequencyentropy"]
         APP_EPISODES: ["countepisode", "minduration", "maxduration", "meanduration", "sumduration"]
@@ -134,7 +135,7 @@ PHONE_APPLICATIONS_FOREGROUND:
 
 # See https://www.rapids.science/latest/features/phone-applications-notifications/
 PHONE_APPLICATIONS_NOTIFICATIONS:
-  CONTAINER: applications_notifications
+  CONTAINER: notifications
   APPLICATION_CATEGORIES:
     CATALOGUE_SOURCE: FILE # FILE (genres are read from CATALOGUE_FILE) or GOOGLE (genres are scrapped from the Play Store)
     CATALOGUE_FILE: "data/external/stachl_application_genre_catalogue.csv"
@@ -148,7 +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: False
+      COMPUTE: True
       FEATURES: ["countdischarge", "sumdurationdischarge", "countcharge", "sumdurationcharge", "avgconsumptionrate", "maxconsumptionrate"]
       SRC_SCRIPT: src/features/phone_battery/rapids/main.py
 
@@ -157,12 +158,12 @@ PHONE_BLUETOOTH:
   CONTAINER: bluetooth
   PROVIDERS:
     RAPIDS:
-      COMPUTE: False
+      COMPUTE: True
       FEATURES: ["countscans", "uniquedevices", "countscansmostuniquedevice"]
       SRC_SCRIPT: src/features/phone_bluetooth/rapids/main.R
 
     DORYAB:
-      COMPUTE: False
+      COMPUTE: True
       FEATURES: 
         ALL: 
             DEVICES: ["countscans", "uniquedevices", "meanscans", "stdscans"]
@@ -183,7 +184,7 @@ PHONE_CALLS:
   CONTAINER: call
   PROVIDERS:
     RAPIDS:
-      COMPUTE: False
+      COMPUTE: True
       FEATURES_TYPE: EPISODES # EVENTS or EPISODES
       CALL_TYPES: [missed, incoming, outgoing]
       FEATURES:
@@ -193,7 +194,7 @@ PHONE_CALLS:
       SRC_SCRIPT: src/features/phone_calls/rapids/main.R
 
 # See https://www.rapids.science/latest/features/phone-conversation/
-PHONE_CONVERSATION:
+PHONE_CONVERSATION: # TODO Adapt for speech
   CONTAINER: 
     ANDROID: plugin_studentlife_audio_android
     IOS: plugin_studentlife_audio
@@ -212,14 +213,34 @@ PHONE_CONVERSATION:
 
 # See https://www.rapids.science/latest/features/phone-data-yield/
 PHONE_DATA_YIELD:
-  SENSORS: []
+  SENSORS: [#PHONE_ACCELEROMETER,
+            PHONE_ACTIVITY_RECOGNITION,
+            PHONE_APPLICATIONS_FOREGROUND,
+            PHONE_APPLICATIONS_NOTIFICATIONS,
+            PHONE_BATTERY,
+            PHONE_BLUETOOTH,
+            PHONE_CALLS,
+            PHONE_LIGHT,
+            PHONE_LOCATIONS,
+            PHONE_MESSAGES,
+            PHONE_SCREEN,
+            PHONE_WIFI_VISIBLE]
   PROVIDERS:
     RAPIDS:
-      COMPUTE: False
+      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_SCRIPT: src/features/phone_data_yield/rapids/main.R
 
+PHONE_ESM:
+  CONTAINER: esm
+  PROVIDERS:
+    STRAW:
+      COMPUTE: False
+      SCALES: ["PANAS_positive_affect", "PANAS_negative_affect", "JCQ_job_demand", "JCQ_job_control", "JCQ_supervisor_support", "JCQ_coworker_support"]
+      FEATURES: [mean]
+      SRC_SCRIPT: src/features/phone_esm/straw/main.py
+
 # See https://www.rapids.science/latest/features/phone-keyboard/
 PHONE_KEYBOARD:
   CONTAINER: keyboard
@@ -231,10 +252,10 @@ PHONE_KEYBOARD:
 
 # See https://www.rapids.science/latest/features/phone-light/
 PHONE_LIGHT:
-  CONTAINER: light
+  CONTAINER: light_sensor
   PROVIDERS:
     RAPIDS:
-      COMPUTE: False
+      COMPUTE: True
       FEATURES: ["count", "maxlux", "minlux", "avglux", "medianlux", "stdlux"]
       SRC_SCRIPT: src/features/phone_light/rapids/main.py
 
@@ -248,7 +269,7 @@ PHONE_LOCATIONS:
 
   PROVIDERS:
     DORYAB:
-      COMPUTE: False
+      COMPUTE: True
       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
@@ -263,7 +284,7 @@ PHONE_LOCATIONS:
       SRC_SCRIPT: src/features/phone_locations/doryab/main.py
 
     BARNETT:
-      COMPUTE: False
+      COMPUTE: True
       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
@@ -278,10 +299,10 @@ PHONE_LOG:
 
 # See https://www.rapids.science/latest/features/phone-messages/
 PHONE_MESSAGES:
-  CONTAINER: messages
+  CONTAINER: sms
   PROVIDERS:
     RAPIDS:
-      COMPUTE: False
+      COMPUTE: True
       MESSAGES_TYPES : [received, sent]
       FEATURES: 
         received: [count, distinctcontacts, timefirstmessage, timelastmessage, countmostfrequentcontact]
@@ -293,7 +314,7 @@ PHONE_SCREEN:
   CONTAINER: screen
   PROVIDERS:
     RAPIDS:
-      COMPUTE: False
+      COMPUTE: True
       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
@@ -315,12 +336,13 @@ PHONE_WIFI_VISIBLE:
   CONTAINER: wifi
   PROVIDERS:
     RAPIDS:
-      COMPUTE: False
+      COMPUTE: True
       FEATURES: ["countscans", "uniquedevices", "countscansmostuniquedevice"]
       SRC_SCRIPT: src/features/phone_wifi_visible/rapids/main.R
 
 
 
+
 ########################################################################################################################
 #                                                 FITBIT                                                               #
 ########################################################################################################################
@@ -484,13 +506,13 @@ EMPATICA_ACCELEROMETER:
       FEATURES: ["maxmagnitude", "minmagnitude", "avgmagnitude", "medianmagnitude", "stdmagnitude"]
       SRC_SCRIPT: src/features/empatica_accelerometer/dbdp/main.py
     CR:
-      COMPUTE: False
+      COMPUTE: True
       FEATURES: ["totalMagnitudeBand", "absoluteMeanBand", "varianceBand"] # Acc features
       WINDOWS:
         COMPUTE: True
         WINDOW_LENGTH: 15 # specify window length in seconds
         SECOND_ORDER_FEATURES: ['mean', 'median', 'sd', 'nlargest', 'nsmallest', 'count_windows']
-        STANDARDIZE_FEATURES: False
+        STANDARDIZE_FEATURES: True
       SRC_SCRIPT: src/features/empatica_accelerometer/cr/main.py
 
 
@@ -512,14 +534,14 @@ EMPATICA_TEMPERATURE:
       FEATURES: ["maxtemp", "mintemp", "avgtemp", "mediantemp", "modetemp", "stdtemp", "diffmaxmodetemp", "diffminmodetemp", "entropytemp"]
       SRC_SCRIPT: src/features/empatica_temperature/dbdp/main.py
     CR:
-      COMPUTE: False
+      COMPUTE: True
       FEATURES: ["maximum", "minimum", "meanAbsChange", "longestStrikeAboveMean", "longestStrikeBelowMean", 
                   "stdDev", "median", "meanChange", "sumSquared", "squareSumOfComponent", "sumOfSquareComponents"]
       WINDOWS:
         COMPUTE: True
         WINDOW_LENGTH: 300 # specify window length in seconds
         SECOND_ORDER_FEATURES: ['mean', 'median', 'sd', 'nlargest', 'nsmallest', 'count_windows']
-        STANDARDIZE_FEATURES: False
+        STANDARDIZE_FEATURES: True
       SRC_SCRIPT: src/features/empatica_temperature/cr/main.py
 
 # See https://www.rapids.science/latest/features/empatica-electrodermal-activity/
@@ -541,7 +563,7 @@ EMPATICA_ELECTRODERMAL_ACTIVITY:
         COMPUTE: True
         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: False
+        STANDARDIZE_FEATURES: True
         IMPUTE_NANS: False
       SRC_SCRIPT: src/features/empatica_electrodermal_activity/cr/main.py
 
@@ -554,14 +576,14 @@ 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: False
+      COMPUTE: True
       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:
         COMPUTE: True
         WINDOW_LENGTH: 300 # specify window length in seconds
         SECOND_ORDER_FEATURES: ['mean', 'median', 'sd', 'nlargest', 'nsmallest', 'count_windows', 'hrv_num_windows_non_nan']
-        STANDARDIZE_FEATURES: False
+        STANDARDIZE_FEATURES: True
       SRC_SCRIPT: src/features/empatica_blood_volume_pulse/cr/main.py
 
 # See https://www.rapids.science/latest/features/empatica-inter-beat-interval/
@@ -573,7 +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: False
+      COMPUTE: True
       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
@@ -581,7 +603,7 @@ EMPATICA_INTER_BEAT_INTERVAL:
         COMPUTE: True
         WINDOW_LENGTH: 300 # specify window length in seconds
         SECOND_ORDER_FEATURES: ['mean', 'median', 'sd', 'nlargest', 'nsmallest', 'count_windows', 'hrv_num_windows_non_nan']
-        STANDARDIZE_FEATURES: False
+        STANDARDIZE_FEATURES: True
       SRC_SCRIPT: src/features/empatica_inter_beat_interval/cr/main.py
 
 # See https://www.rapids.science/latest/features/empatica-tags/