From 9b0a644b3f803bf2b040b58ae528e964cc01c218 Mon Sep 17 00:00:00 2001
From: Dijkhof <m.f.dijkhof@student.rug.nl>
Date: Wed, 30 Jun 2021 15:16:25 +0200
Subject: [PATCH] 'formules.py' toevoegen

---
 formules.py | 135 ++++++++++++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 135 insertions(+)
 create mode 100644 formules.py

diff --git a/formules.py b/formules.py
new file mode 100644
index 0000000..359689b
--- /dev/null
+++ b/formules.py
@@ -0,0 +1,135 @@
+# -*- coding: utf-8 -*-
+"""
+Created on Wed Jun 16 09:34:35 2021
+
+@author: -
+"""
+import osa
+import pandas as pd
+import numpy as np
+import matplotlib.pyplot as plt
+from datetime import timedelta
+from scipy.optimize import curve_fit
+
+# Formulas
+
+def ReadCSV(filename):
+    df = pd.read_csv(filename, names=['Datetime', 'Acc X','Acc Y', 'Acc Z'], infer_datetime_format=True)
+    df['Datetime'] = pd.to_datetime(df['Datetime'])
+    df['Date'] = [d.date() for d in df['Datetime']]
+    df = df.reindex(columns=['Datetime','Date','Time','Acc X','Acc Y', 'Acc Z'])
+    return df
+
+def CreateDays(x, filename, path):
+    
+    savename = filename.replace('.csv','')
+    savepath = path + savename
+    os.makedirs(savepath)
+    os.chdir(savepath)
+    
+    startdate = x['Date'].iloc[0]
+    week = range(1,8)
+    
+    for i in week:
+        weekdayindex = i-1
+        
+        day = startdate + timedelta(days=weekdayindex)
+        daydate = x['Date'] == startdate + timedelta(days=weekdayindex)
+        dataday = x[daydate]
+        totalweek = {day:dataday}
+        
+        savefile = totalweek[day]
+        varname = filename.replace('.csv','-') + str(day) + '.csv'
+        savefile.to_csv(varname)
+        
+        print(varname +' saved')
+    
+    return(totalweek)
+
+
+def SVMEpoch(DF,ResampRate, ResampData):
+    newDF = pd.DataFrame(DF)
+    newDF['X2'] = np.power(newDF['Acc X'], 2)
+    newDF['Y2'] = np.power(newDF['Acc Y'], 2)
+    newDF['Z2'] = np.power(newDF['Acc Z'], 2)
+    newDF['SVM'] = np.sqrt(newDF[['X2', 'Y2', 'Z2']].sum(axis=1))
+    newDF['Datetime'] = pd.to_datetime(newDF['Datetime'])
+   
+    EpochSVM = newDF.resample(ResampRate, on = ResampData).mean()
+    return(newDF, EpochSVM)
+
+def func(x, a, b, c):
+    return a * np.exp(-b*x) + c
+
+def SlopeWeeker(Keylist, Dict):
+    try:    
+        SlopeWeek = pd.DataFrame(columns=['a','b', 'c', 'Name'])
+        SlopeWeek = SlopeWeek.set_index('Name')
+            
+        for key in Keylist:
+            newDF, EpochSVM = SVMEpoch(Dict[key], '60S', 'Datetime')
+           
+            ENMO = EpochSVM['SVM']-1
+            ENMO = ENMO*1000
+           
+            for value in ENMO:
+                if value < 0:
+                    value = 0
+           
+            BinSize = 5 
+           
+            ENMOmax = int(ENMO.max())
+            
+            if ENMOmax % BinSize == 0:
+                ENMOmax = ENMOmax+1 #to make sure that interference with binsize is impossible
+            
+            MaxBin = int(ENMOmax/BinSize)+1
+            ENMO = ENMO.astype(int)
+           
+            Counter = pd.DataFrame(np.zeros((1,MaxBin)))
+           
+            for x in Counter:
+                Count = (x+1)*BinSize
+                Start = Count - BinSize
+                Number = ENMO.between(Start, Count).sum()
+                Counter[x] = Number
+            
+            Counter = Counter.to_numpy()
+            Counter = Counter.astype(float)
+            Counter = Counter.flatten()
+            
+            Xscale = np.arange(0,ENMOmax, BinSize)
+            Xscale = Xscale.astype(float)
+            
+            popt, _ = curve_fit(func, Xscale, Counter, p0=None) # fit curve through points 
+            a, b, c = popt
+            
+            Trendline = func(Xscale, a, b, c)
+           
+            SlopeWeek.loc[key, 'a'] = a
+            SlopeWeek.loc[key, 'b'] = b
+            SlopeWeek.loc[key, 'c'] = c
+            SlopeWeek.loc[key, 'ENMOmax'] = ENMOmax
+           
+            PtName = key.replace('35694_00000', '')
+            PtName = PtName.replace('resampled-','') 
+            PtName = PtName.replace('.csv','')
+            
+            plt.figure()
+            plt.ylim(0,1440)
+            plt.xlim(0,(ENMOmax+10))
+            plt.title('Intensity plot ' + PtName)
+            plt.xlabel('Movement intensity [bins of ' + str(BinSize) + ' mg]')
+            plt.ylabel('Amount of time spend at intensity [min]')
+            plt.grid()
+            plt.scatter(Xscale, y=Counter)
+            plt.plot(Xscale, Trendline, 'r--')
+            plt.show()
+            
+            PtName = (PtName + '.png')
+            plt.savefig(fname=PtName)
+            
+    except:
+        print(PtName + ' could not be used')
+
+    return SlopeWeek