revert changes as these were used for regressions

feature_calculation/protein.py

@@ -83,12 +83,12 @@ def percent_thermolabile(AA_counts):
 def EKQH(AA_counts):
 	#calculate the ratio of EK/QH in the proteome
 	EK = 0.0
-	QH=0.0
+	QT=0.0
 	for x in ['E','K']:	
 		EK=EK+AA_counts[x]
-	for x in ['Q','H']:
-		QH=QH+AA_counts[x]
-	return EK/QH
+	for x in ['Q','T']:
+		QT=QT+AA_counts[x]
+	return EK/QT
 
 def EFMR(AA_counts):
 	#calculate the fraction of EFMR in the proteome
@@ -124,6 +124,8 @@ def percent_ERK(AA_counts):
 	counts= sum(AA_counts.values())
 	for x in ['E','R','K']:	
 		ERK=ERK+AA_counts[x]
+	for x in AAs:
+		counts=counts+AA_counts[x]
 	return ERK/counts
 
 def LKQ(AA_counts):