def RunBICTest(chr, beginSeqName, fileName, globalOrLocalTest, organism):
"""
Runs all BIC test calculations.
chr: Current chromosome number.
beginSeqName: Beginning of the sequence name of the queried chromosome. (e.g. "Gene")
fileName: Output file name.
globalOrLocalTest: String identifying whether to use global or local Mt values.
organism: Organism's name.
"""
print ("BIC")
if (globalOrLocalTest == "Global"):
PalphaGammaHatAsym = printAndParseFiles.parsePalphaGamma("Calculations_" + organism + "\PalphaGammaHat%s\PalphaGammaHatAsymmetric%d.txt" % (globalOrLocalTest,chr), beginSeqName)
PalphaGammaHatSym = printAndParseFiles.parsePalphaGamma("Calculations_" + organism + "\PalphaGammaHat%s\PalphaGammaHatSymmetric%d.txt" % (globalOrLocalTest,chr), beginSeqName)
LgammaAsym = printAndParseFiles.parseValueFile("Calculations_" + organism + "\Lgamma%s\LgammaAsymmetric%d.txt" % (globalOrLocalTest,chr))
LgammaSym = printAndParseFiles.parseValueFile("Calculations_" + organism + "\Lgamma%s\LgammaSymmetric%d.txt" % (globalOrLocalTest,chr))
BICAsym = BIC.findBIC(PalphaGammaHatAsym, LgammaAsym, "A")
BICSym = BIC.findBIC(PalphaGammaHatSym, LgammaSym, "S")
printAndParseFiles.compareAndPrintBICs(BICAsym, BICSym, fileName)
elif (globalOrLocalTest == "Local"):
PalphaGammaHatAsym = printAndParseFiles.parsePalphaGamma("Calculations_" + organism + "\PalphaGammaHat%s\PalphaGammaHatAsymmetric%d.txt" % (globalOrLocalTest,chr), beginSeqName)
PalphaGammaHatSym = printAndParseFiles.parsePalphaGamma("Calculations_" + organism + "\PalphaGammaHat%s\PalphaGammaHatSymmetric%d.txt" % (globalOrLocalTest,chr), beginSeqName)
LgammaAsym = printAndParseFiles.parseValueFile("Calculations_" + organism + "\Lgamma%s\LgammaAsymmetric%d.txt" % (globalOrLocalTest,chr))
LgammaSym = printAndParseFiles.parseValueFile("Calculations_" + organism + "\Lgamma%s\LgammaSymmetric%d.txt" % (globalOrLocalTest,chr))
BICAsym = BIC.findBIC(PalphaGammaHatAsym, LgammaAsym, "A")
BICSym = BIC.findBIC(PalphaGammaHatSym, LgammaSym, "S")
printAndParseFiles.compareAndPrintBICs(BICAsym, BICSym, fileName)
else:
print "Error with Global or Local choice. Please type 'Global' or 'Local'"
print ("DONE WITH CHR %d" % chr)
