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scriptVaccini.py
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scriptVaccini.py
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import ROOT,csv
from datetime import date
from tools import applyScaleFactors
ROOT.gROOT.SetBatch(True)
#ROOT.gROOT.SetBatch(False)
fitRange = 3
functionRange = 30
#functionRange = fitRange
applySF = False
applySF = True
#cumulative = False
cumulative = True
colors = [
ROOT.kBlack,
ROOT.kYellow+1,
ROOT.kRed,
ROOT.kMagenta,
ROOT.kBlue,
ROOT.kCyan+1,
ROOT.kGreen+1,
ROOT.kOrange,
ROOT.kPink,
ROOT.kViolet,
ROOT.kAzure,
ROOT.kTeal,
ROOT.kSpring,
ROOT.kGray,
]
colors += colors
refDate = date(2021,12,31)
#histoMax = (date.today() - refDate).days+1
histoMax = (date(2022,4,30) - refDate).days+0.5
#histoMin = (date(2021,3,1) - refDate).days-0.5
#histoMin = (date(2021,2,18) - refDate).days-0.5
histoMin = (date(2022,2,1) - refDate).days-0.5
histoMin = (date(2021,6,30) - refDate).days-0.5
histoMin = (date(2021,10,30) - refDate).days-0.5
#histoMin = (date(2021,5,1) - refDate).days-0.5
#x_min=(date(2021,3,1) - refDate).days-0.5
histoN = int(histoMax - histoMin)
lastDate = (date.today() - refDate).days-2
#lastDate = 0
excludedDays = []
excludedDays.append((date(2021,4,3) - refDate).days)
excludedDays.append((date(2021,4,4) - refDate).days)
excludedDays.append((date(2021,4,5) - refDate).days)
excludedDays.append((date(2021,3,16) - refDate).days)
excludedDays.append((date(2021,3,17) - refDate).days)
excludedDays.append((date(2021,3,18) - refDate).days)
excludedDays.append((date(2021,3,19) - refDate).days)
excludedDays.append(histoMin)
excludedDays.append(histoMin-1)
peopleToBeVaccinated = True
plateaFileName ="dataVaccini/dati/platea.csv"
consegneFileName ="dataVaccini/dati/consegne-vaccini-latest.csv"
somministrazioniFileName = "dataVaccini/dati/somministrazioni-vaccini-latest.csv"
def getPlot(somministrazioniTree, plateaTree, selection, dosi= "prima_dose+seconda_dose", cumulative=True, hname = None, peopleToBeVaccinated = False):
if hname==None:
hname = "histo_"+selection+dosi
if cumulative: hname = hname + "cumul"
sel = "1. * %s * (%s)"%(selection,dosi)
somministrazioniTree.Draw("max(%s,data_somministrazione) >> %s(%s,%s,%s)"%(histoMin,hname,histoN,histoMin,histoMax), sel, "HIST")
# somministrazioniTree.Draw("data_somministrazione >> histo2", sel, "HIST")
# print('somministrazioniTree.Draw("data_somministrazione >> histo2(%s,%s,%s)", "%s", "HIST")'%(histoN,histoMin,histoMax,sel))
print(getattr(ROOT,hname), hname)
histo = getattr(ROOT,hname).Clone(hname)
print(histo.Integral())
if cumulative:
histo = histo.GetCumulative()
# for i in range(histo.FindBin(lastDate+1),histo.GetNbinsX()+1):
for i in reversed(range(1,histo.GetNbinsX())):
# lastDate=10
# break
# print(i, histo.GetBinContent(i), histo.GetBinContent(i+1))
if histo.GetBinContent(i)==histo.GetBinContent(i+1):
pass
histo.SetBinContent(i+1,0)
# print(i+1,0)
else:
if cumulative:
histo.SetBinContent(i+1,0)
lastDate=histo.GetBinCenter(i)
else:
histo.SetBinContent(i+1,0)
histo.SetBinContent(i,0)
lastDate=histo.GetBinCenter(i)-1
print ("lastDate=",lastDate)
break
for excludedDay in excludedDays:
histo.SetBinContent(histo.FindBin(excludedDay),0)
# print("SetZero",i)
for date in range(int(lastDate)+2,int(lastDate)+100):
histo.SetBinContent(histo.FindBin(date),0)
histo = histo.Clone(hname)
histo.Sumw2()
plateaTree.Draw("1 >> aaa", "(%s) * totale_popolazione"%selection,"GOFF")
tmphisto = getattr(ROOT,"aaa")
ndosi = len(dosi.split("+"))
norm = tmphisto.Integral()
print("Selection = %s, Norm = %f, ndosi = %d"%(selection, norm, ndosi))
del tmphisto
if peopleToBeVaccinated and cumulative:
for i in range(len(histo)):
if histo.GetBinContent(i)!=0:
histo.SetBinContent(i, 1.*norm*ndosi - histo.GetBinContent(i))
histo.Scale(100./norm)
print(hname)
print(sel)
return histo, lastDate
regionMap = {
'ABR' : '13',
'BAS' : '17',
'CAL' : '18',
'CAM' : '15',
'EMR' : '8',
'FVG' : '6',
'LAZ' : '12',
'LIG' : '7',
'LOM' : '3',
'MAR' : '11',
'MOL' : '14',
'PAB' : '4',
'PAT' : '4',
'PIE' : '1',
'PUG' : '16',
'SAR' : '20',
'SIC' : '19',
'TOS' : '9',
'UMB' : '10',
'VDA' : '2',
'VEN' : '5',
}
def convertData(label, data):
if 'data' in label:
yyyy, mm, dd = data.split("-")
delta = date(int(yyyy), int(mm), int(dd)) - refDate
return str(delta.days)
elif label=='fornitore':
if 'Pfizer'in data:
return "1"
elif 'Moderna' in data:
return "2"
elif 'AstraZeneca' in data:
return "-1"
elif 'Janssen' in data:
return "-2"
else:
return "-3"
elif label=='fascia_anagrafica':
if "90+" in data: return "80" #merge 90+ with 80+
elif "80+" in data: return "80"
return data.split("-")[0]
elif label=='area':
return regionMap[data]
else:
return data
def getPlatea(fileName):
with open(fileName) as csv_file:
csv_reader = csv.reader(csv_file, delimiter=',')
line_count = 0
labels = None
data = {}
for row in csv_reader:
# print "XXX",row
if line_count ==0:
labels = row[:]
else:
for label in labels:
if not label in data: data[label]={}
data[label][convertData('fascia_anagrafica',row[2])]=convertData(label, row[labels.index(label)])
line_count+=1
return data
def updateROOTfile(fileName, rootFileName):
newcsvFileName = fileName.replace(".csv","_tmp.csv")
print("I'm building %s from %s"%(rootFileName,newcsvFileName))
sel_labels = [
"data_somministrazione",
"numero_dosi",
# "area",
"fornitore",
"fascia_anagrafica",
"sesso_maschile",
"sesso_femminile",
"categoria_operatori_sanitari_sociosanitari",
"categoria_personale_non_sanitario",
"categoria_ospiti_rsa",
"categoria_60_69",
"categoria_70_79",
"categoria_over80",
"categoria_forze_armate",
"categoria_soggetti_fragili",
"categoria_personale_scolastico",
"categoria_altro",
"prima_dose",
"seconda_dose",
"numero_dosi",
"data_consegna",
# "codice_NUTS1",
# "codice_NUTS2",
"codice_regione_ISTAT",
"totale_popolazione",
"area",
]
fixed_csv = file(newcsvFileName,'w')
with open(fileName) as csv_file:
csv_reader = csv.reader(csv_file, delimiter=',')
line_count = 0
labels = None
data = {}
for row in csv_reader:
# print "XXX",row
if line_count ==0:
labels = row[:]
for label in sel_labels:
if not label in labels: continue
fixed_csv.write(label)
if label==sel_labels[-1]:
fixed_csv.write("\n")
else:
fixed_csv.write(",")
else:
for label in sel_labels:
if not label in labels: continue
fixed_csv.write(convertData(label, row[labels.index(label)]))
if label==sel_labels[-1]:
fixed_csv.write("\n")
else:
fixed_csv.write(",")
line_count+=1
fixed_csv.close()
fil_ = ROOT.TFile(rootFileName,"RECREATE")
tree = ROOT.TTree()
tree.SetName("tree")
tree.ReadFile(newcsvFileName)
tree.Write()
fil_.Close()
print("DONE")
platea = getPlatea(plateaFileName)
plateaROOTFileName = plateaFileName.replace(".csv",".root")
consegneROOTFileName = consegneFileName.replace(".csv",".root")
somministrazioniROOTFileName = somministrazioniFileName.replace(".csv",".root")
updateROOTfile(somministrazioniFileName, somministrazioniROOTFileName)
updateROOTfile(consegneFileName, consegneROOTFileName)
updateROOTfile(plateaFileName, plateaROOTFileName)
somministrazioniFile = ROOT.TFile.Open(somministrazioniROOTFileName)
consegneFile = ROOT.TFile.Open(consegneROOTFileName)
plateaFile = ROOT.TFile.Open(plateaROOTFileName)
somministrazioniTree = somministrazioniFile.Get("tree")
consegneTree = consegneFile.Get("tree")
plateaTree = plateaFile.Get("tree")
ROOT.gStyle.SetOptStat("0")
print('''
selection = "(fornitore==-1) * (codice_regione_ISTAT==7)"
c1 = ROOT.TCanvas("c1")
somministrazioniTree.Draw("data_somministrazione >> histo","1. * %s * (prima_dose+seconda_dose)"%selection,"HIST")
histo = ROOT.histo.GetCumulative()
consegneTree.Draw("data_consegna >> histo2","1. * %s * (numero_dosi)"%selection,"HIST")
histo2 = ROOT.histo2.GetCumulative()
histo2.Draw("HIST")
histo.Draw("HIST,SAME")
''')
#selection = "(fornitore==-1) * (codice_regione_ISTAT==7)"
#somministrazioniTree.Draw("data_somministrazione >> histo","1. * %s * (prima_dose+seconda_dose)"%selection,"HIST")
#histo = ROOT.histo.GetCumulative()
#consegneTree.Draw("data_consegna >> histo2","1. * %s * (numero_dosi)"%selection,"HIST")
#histo2 = ROOT.histo2.GetCumulative()
#histo2.Draw("HIST")
#histo.Draw("HIST,SAME")
#selection = "(fornitore==-1) * (fascia_anagrafica==90)"
norms = {
"categoria_operatori_sanitari_sociosanitari":1886260,
"categoria_personale_non_sanitario":6E5,
"categoria_ospiti_rsa": 379452,
# "categoria_60_69":7.379E6,
# "categoria_70_79":5.944E6,
# "categoria_over80":4419703,
"categoria_forze_armate":551566,
"categoria_soggetti_fragili":2.08E6+5.87E6, #ultravulnerabili + vulnerabili
"categoria_personale_scolastico": 1483442,
# "categoria_altro":50E6,
"prima_dose":59816673,
"seconda_dose":59816673,
5:3701789,
12:4575259,
20:2962307+3175599,
30:3320500+3654733,
40:4372031+4785280,
50:4900974+4387417,
60:3819054+3468709,
70:3215420+2712798,
80:2162715+1367800,
90:599445+152196+14132,
0:59816673,
#Dati presi da https://www.tuttitalia.it/statistiche/popolazione-eta-sesso-stato-civile-2019/
}
norms["categoria_over80"] = norms[80] + norms[90] - norms["categoria_ospiti_rsa"]
norms["categoria_altro"] = norms[0] - norms["categoria_operatori_sanitari_sociosanitari"] - norms["categoria_personale_non_sanitario"] - norms["categoria_ospiti_rsa"] - norms["categoria_forze_armate"] - norms["categoria_soggetti_fragili"] - norms["categoria_personale_scolastico"] - norms[60] - norms[70]
for norm in norms:
if type(norm)==str and "categoria" in norm and norm !="categoria_altro":
norms["categoria_altro"]-=norms[norm]
print("Norm altro = ", norms["categoria_altro"])
cats = [
# "categoria_operatori_sanitari_sociosanitari",
# "categoria_personale_non_sanitario",
# "categoria_ospiti_rsa",
# "categoria_forze_armate",
# "categoria_personale_scolastico",
# "categoria_altro",
## "categoria_60_69",
## "categoria_70_79",
# "categoria_over80",
# "categoria_soggetti_fragili",
# 90,
80,
70,
60,
50,
40,
30,
20,
12,
5,
0,
# "prima_dose",
# "seconda_dose",
]
max_=0
for tipo in ["prima_dose","seconda_dose","somministrazioni"]:
#for tipo in ["somministrazioni"]:
fits = {}
fitdiffs = {}
for cumulative in [False,True]:
# for cumulative in [False]:
histos = {}
ratio = {}
for i,cat in enumerate(cats):
selection = "(fascia_anagrafica==%d)"%cat
if tipo == "somministrazioni":
dosi = "(prima_dose+seconda_dose)"
else:
dosi = "(%s) "%tipo
selection = selection.replace("(fascia_anagrafica==0)","(1)") ## fascia_anagrafica = 0 means all fascia_anagrafica
histos[cat], lastDate = getPlot(somministrazioniTree, plateaTree, selection = selection, dosi = dosi, cumulative = cumulative, hname="histo_%s_%s%s"%(str(cat),tipo,"" if cumulative else "_daily"), peopleToBeVaccinated=peopleToBeVaccinated)
if not cumulative and applySF:
applyScaleFactors(histos[cat])
histos[cat].SetLineWidth(3)
histos[cat].SetFillStyle(0)
# histos[cat].Scale(100./norms[cat]) ##old method, new method: renormalization done in getPlot
if cumulative:
fits[cat] = ROOT.TF1(str(cat)+tipo,"[0]+[1]*x",lastDate-functionRange+0.5,histoMax)
p1 = -fitdiffs[cat].GetParameter(0)
p0 = histos[cat].GetBinContent(histos[cat].FindBin(lastDate))-p1*lastDate
fits[cat].FixParameter(1, p1)
fits[cat].FixParameter(0, p0)
fits[cat].SetLineStyle(9)
else:
fitdiffs[cat] = ROOT.TF1(str(cat)+tipo,"[0]",lastDate-fitRange+0.5,lastDate+0.5)
fitdiffs[cat].SetLineStyle(9)
if cat==0 or cat=="prima_dose" or cat=="seconda_dose":
width = 5
if cumulative:
fits[cat].SetLineWidth(width)
else:
fitdiffs[cat].SetLineWidth(width)
histos[cat].SetLineWidth(width)
if not cumulative: histos[cat].Fit(fitdiffs[cat],"W","",lastDate-fitRange+0.5,lastDate+0.5)
ratio[cat] = histos[cat].GetMaximum()
if not "sanitari" in str(cat):
max_ = max(max_, histos[cat].GetMaximum())
x0,y0,dx,dy = 0.1,0.99,0.08,0.55
# if tipo=="somministrazioni": dx = 0.25
x0=1.-dx-0.01
# if not cumulative or tipo!="somministrazioni": x0=1.-dx-0.01
leg = ROOT.TLegend(x0,y0-dy,x0+dx,y0)
c1 = ROOT.TCanvas("c1","",1920, 1080)
for i,cat in enumerate(reversed([x for _,x in sorted(zip(ratio.values(),ratio.keys()))])):
# histos[cat].SetMaximum(max_*1.1)
histos[cat].SetLineColor(colors[i])
if cumulative:
fits[cat].SetLineColor(colors[i])
if tipo=="somministrazioni": histos[cat].SetMaximum(200.)
else: histos[cat].SetMaximum(100.)
else:
fitdiffs[cat].SetLineColor(colors[i])
# histos[cat].SetMinimum(0.02)
if i==0:
histos[cat].GetXaxis().SetTitle("Giorni dal 31 Dicembre")
histos[cat].GetYaxis().SetTitle(tipo.replace("_"," ")+" (%)")
histos[cat].SetTitle(tipo.replace("_"," "))
histos[cat].Draw("HIST")
# histos[cat].GetXaxis().SetRangeUser(x_min, histoMax)
else:
histos[cat].Draw("HIST,same")
if cumulative:
fits[cat].Draw("same")
else:
fitdiffs[cat].Draw("same")
label = str(cat).replace("categoria_","")
label = label.replace("_"," ")
if label == "0": label = "all"
leg.AddEntry(histos[cat],label,"l");
leg.Draw("same")
c1.SetGridx()
c1.SetGridy()
# c1.GetListOfPrimitives()[1].GetYaxis().SetRangeUser(0.02, 2.)
##c1.GetListOfPrimitives()[1].GetYaxis().SetRangeUser(0, max_*1.1)
c1.Modified()
c1.Update()
plotName=tipo
if not cumulative: plotName=tipo+"_daily"
c1.SetLogy(0)
c1.SaveAs("plotVaccini/%s.png"%plotName)
c1.SetLogy()
c1.SaveAs("plotVaccini/%s_log.png"%plotName)
#integral = ROOT.histo.GetIntegral()
#for i in ROOT.histo:
# ROOT.histo.SetBinContent(i, integral[i])
labels = {
"J&J " : ("prima_dose","fornitore==-2"),
"Asz1" : ("prima_dose","fornitore==-1"),
"Pfz1" : ("prima_dose","fornitore==1"),
"Mod1" : ("prima_dose","fornitore==2"),
"Asz2" : ("seconda_dose","fornitore==-1"),
"Pfz2" : ("seconda_dose","fornitore==1"),
"Mod2" : ("seconda_dose","fornitore==2"),
}
labels_keys=[
"Eta'",
"Tot ",
"J&J ",
"Asz1",
"Pfz1",
"Mod1",
"Asz2",
"Pfz2",
"Mod2",
]
tab = ""
for i, sel in enumerate(labels_keys):
tab += sel
if i == len(labels_keys)-1:
tab += "\n"
else:
tab += ","
for fascia_anagrafica in cats:
selection = "fascia_anagrafica == %d"%fascia_anagrafica
for i, label in enumerate(labels_keys):
if label == "Eta'":
tab += "%d,"%fascia_anagrafica
continue
elif label == "Tot ":
plateaTree.Draw("1 >> aaa", "(%s) * totale_popolazione"%selection,"GOFF")
else:
dosi, fornitore = labels[label]
somministrazioniTree.Draw("1 >> aaa", "(%s) * (%s) * (%s)"%(dosi, fornitore, selection),"GOFF")
tmphisto = getattr(ROOT,"aaa")
val = tmphisto.Integral()
del tmphisto
tab += "%.3f"%(val/1E6)
if i == len(labels_keys)-1:
tab += "\n"
else:
tab += ","
print(tab)
f_ = open("vaccini_tabella.csv","w")
f_.write(tab)
f_.close()
'''
data_somministrazione,
fornitore,
area,
fascia_anagrafica,
sesso_maschile,
sesso_femminile,
categoria_operatori_sanitari_sociosanitari,
categoria_personale_non_sanitario,
categoria_ospiti_rsa,
categoria_over80,
categoria_forze_armate,
categoria_personale_scolastico,
categoria_altro,
prima_dose,
seconda_dose,
codice_NUTS1,
codice_NUTS2,
codice_regione_ISTAT,
nome_area'''
#FASCIA ANAGRAFICA: [20, 16, 30, 50, 40, 60, 70, 90, 80]
'''
01 PIEMONTE
02 VALLE D'AOSTA
03 LOMBARDIA
04 TRENTINO A. A.
05 VENETO
06 FRIULI V. G
07 LIGURIA
08 EMILIA ROMAGNA
09 TOSCANA
10 UMBRIA
11 MARCHE
12 LAZIO
13 ABRUZZI
14 MOLISE
15 CAMPANIA
16 PUGLIE
17 BASILICATA
18 CALABRIA
19 SICILIA
20 SARDEGNA
'''