def generateautomata(translatefile, clustalfile):
# structures initiales
clustalalilist = dataread.importclustalWdata(clustalfile)
dictoflistseqstate, listofsequence, setoftransition, linenumber = dataread.importdatadictfromtranslatedata(
translatefilei
)
listoftransition = list(setoftransition)
listoftransition.sort() # juste to have the inital number of col in the automata
numberoftransition = len(listoftransition)
# creation de l automate
automata = generatestartautomata(numberoftransition)
automata = generateinitialstate(automata, listofsequence, listoftransition, numberoftransition)
# apprentisage a partir de l alignement multiple
automata = generateloop(automata, clustalalilist, listoftransition, numberoftransition)
import automate
import dataread
import sys
name=str(sys.argv[1]).split("/")[1]
print(name)
reptranslate="datasetstranslate/"
repclustal="aliclustalordered/"
image="image/"
clustalalilist=dataread.importclustalWdata(repclustal+name+".alignement")
dictoflistseqstate,listofsequence,setoftransition,linenumber=dataread.importdatadictfromtranslatedata(reptranslate+name)
listoftransition=list(setoftransition)
listoftransition.sort()#juste to have the inital number of col in the automata
numberoftransition=len(listoftransition)
automata=automate.generatestartautomata(numberoftransition)
automata=automate.generateinitialstate(automata,listofsequence,listoftransition,numberoftransition)
#automate.exportautomateasgraph(automata,False,listoftransition,image+name+".init.png")
automata,dictofloopposition,dictofindexinclustal,poslist=automate.generateloop(automata,clustalalilist,listoftransition,numberoftransition)
#automate.exportautomateasgraph(automata,False,listoftransition,image+name+".generateloop.png")
#print(listoftransition)
#liaison des boucles avec les inits
automata,dictofloopposition,dictofindexinclustal,poslist=automate.mergeloopwithotherstate(automata,dictofloopposition,dictofindexinclustal,poslist,clustalalilist,listoftransition,numberoftransition)
#print("boucleinfo after",dictofloopposition,dictofindexinclustal,poslist)
#print("automate apres merging des loops:",automata)
#automate.exportautomateasgraph(automata,False,listoftransition,image+name+".mergedesloops.png")
#finition de l'automate
#apprentisage a partir des donnes
#on va simplifier le global, complexifier le local:
boucleinformation=[dictofloopposition,dictofindexinclustal,poslist]
automata=automate.learnfromdata(automata,listofsequence,clustalalilist,boucleinformation,listoftransition,numberoftransition)
#print("apres learning du data:",automata)