From 64e41cfa35f890dfcd5dfa64148a3af565047a32 Mon Sep 17 00:00:00 2001
From: primoz <sisko.primoz@gmail.com>
Date: Tue, 7 Jun 2022 10:39:48 +0000
Subject: [PATCH] Second order features standardization in config.yaml.

---
 config.yaml | 19 ++++++++++++-------
 1 file changed, 12 insertions(+), 7 deletions(-)

diff --git a/config.yaml b/config.yaml
index eafe27fe..c74d544e 100644
--- a/config.yaml
+++ b/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:
@@ -183,7 +183,7 @@ PHONE_CALLS:
   CONTAINER: call
   PROVIDERS:
     RAPIDS:
-      COMPUTE: False
+      COMPUTE: True
       FEATURES_TYPE: EPISODES # EVENTS or EPISODES
       CALL_TYPES: [missed, incoming, outgoing]
       FEATURES:
@@ -484,12 +484,13 @@ 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', 'max', 'min']
+        STANDARDIZE_SO_FEATURES: True
       SRC_SCRIPT: src/features/empatica_accelerometer/cr/main.py
 
 
@@ -498,7 +499,7 @@ EMPATICA_HEARTRATE:
   CONTAINER: HR
   PROVIDERS:
     DBDP:
-      COMPUTE: False
+      COMPUTE: True
       FEATURES: ["maxhr", "minhr", "avghr", "medianhr", "modehr", "stdhr", "diffmaxmodehr", "diffminmodehr", "entropyhr"]
       SRC_SCRIPT: src/features/empatica_heartrate/dbdp/main.py
 
@@ -511,13 +512,14 @@ EMPATICA_TEMPERATURE:
       FEATURES: ["maxtemp", "mintemp", "avgtemp", "mediantemp", "modetemp", "stdtemp", "diffmaxmodetemp", "diffminmodetemp", "entropytemp"]
       SRC_SCRIPT: src/features/empatica_temperature/dbdp/main.py
     CR:
-      COMPUTE: False
-      FEATURES: ["countAboveMean", "countBelowMean", "maximum", "minimum", "meanAbsChange", "longestStrikeAboveMean", "longestStrikeBelowMean", 
+      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', 'max', 'min']
+        STANDARDIZE_SO_FEATURES: True
       SRC_SCRIPT: src/features/empatica_temperature/cr/main.py
 
 # See https://www.rapids.science/latest/features/empatica-electrodermal-activity/
@@ -529,7 +531,7 @@ EMPATICA_ELECTRODERMAL_ACTIVITY:
       FEATURES: ["maxeda", "mineda", "avgeda", "medianeda", "modeeda", "stdeda", "diffmaxmodeeda", "diffminmodeeda", "entropyeda"]
       SRC_SCRIPT: src/features/empatica_electrodermal_activity/dbdp/main.py
     CR:
-      COMPUTE: False
+      COMPUTE: True
       FEATURES: ['mean', 'std', 'q25', 'q75', 'qd', 'deriv', 'power', 'numPeaks', 'ratePeaks', 'powerPeaks', 'sumPosDeriv', 'propPosDeriv', 'derivTonic', 
                   'sigTonicDifference', 'freqFeats','maxPeakAmplitudeChangeBefore', 'maxPeakAmplitudeChangeAfter', 'avgPeakAmplitudeChangeBefore', 
                   'avgPeakAmplitudeChangeAfter', 'avgPeakChangeRatio', 'maxPeakIncreaseTime', 'maxPeakDecreaseTime', 'maxPeakDuration', 'maxPeakChangeRatio',
@@ -539,6 +541,7 @@ EMPATICA_ELECTRODERMAL_ACTIVITY:
         COMPUTE: True
         WINDOW_LENGTH: 60 # specify window length in seconds
         SECOND_ORDER_FEATURES: ['mean', 'median', 'sd', 'max', 'min']
+        STANDARDIZE_SO_FEATURES: True
       SRC_SCRIPT: src/features/empatica_electrodermal_activity/cr/main.py
 
 # See https://www.rapids.science/latest/features/empatica-blood-volume-pulse/
@@ -557,6 +560,7 @@ EMPATICA_BLOOD_VOLUME_PULSE:
         COMPUTE: True
         WINDOW_LENGTH: 300 # specify window length in seconds
         SECOND_ORDER_FEATURES: ['mean', 'median', 'sd', 'max', 'min']
+        STANDARDIZE_SO_FEATURES: True
       SRC_SCRIPT: src/features/empatica_blood_volume_pulse/cr/main.py
 
 # See https://www.rapids.science/latest/features/empatica-inter-beat-interval/
@@ -576,6 +580,7 @@ EMPATICA_INTER_BEAT_INTERVAL:
         COMPUTE: True
         WINDOW_LENGTH: 300 # specify window length in seconds
         SECOND_ORDER_FEATURES: ['mean', 'median', 'sd', 'max', 'min']
+        STANDARDIZE_SO_FEATURES: True
       SRC_SCRIPT: src/features/empatica_inter_beat_interval/cr/main.py
 
 # See https://www.rapids.science/latest/features/empatica-tags/