def getCladeA():
clade = Clade('Deltaproteobacteria')
# pre-fetch collective metabolism into memory
clade.collectiveMetabolism(excludeMultifunctionalEnzymes=True)
# pre-fetch collective enzyme metabolism into memory
clade.collectiveMetabolismEnzymes(excludeMultifunctionalEnzymes=True)
return clade
def getDesulfobacteralesClade():
archaeaClade = Clade('Deltaproteobacteria/Desulfobacterales')
# pre-fetch collective metabolism into memory
archaeaClade.collectiveMetabolism(excludeMultifunctionalEnzymes=True)
# pre-fetch collective enzyme metabolism into memory
archaeaClade.collectiveMetabolismEnzymes(excludeMultifunctionalEnzymes=True)
return archaeaClade
def getClade():
clade = Clade('Archaea')
# pre-fetch collective metabolism into memory
clade.collectiveMetabolism(
excludeMultifunctionalEnzymes=settings.defaultNoMultifunctional)
# pre-fetch collective enzyme metabolism into memory
clade.collectiveMetabolismEnzymes(
excludeMultifunctionalEnzymes=settings.defaultNoMultifunctional)
return clade
def getArchaeaClade():
archaeaClade = Clade('/Archaea')
# pre-fetch collective metabolism into memory
archaeaClade.collectiveMetabolism(excludeMultifunctionalEnzymes=True)
return archaeaClade
def getGammaproteobacteriaClade():
clade = Clade('Proteobacteria/Gammaproteobacteria')
# pre-fetch collective metabolism into memory
clade.collectiveMetabolism(excludeMultifunctionalEnzymes=True)
return clade
def getBacteriaClade():
bacteriaClade = Clade('/Bacteria')
# pre-fetch collective metabolism into memory
bacteriaClade.collectiveMetabolism(excludeMultifunctionalEnzymes=True)
return bacteriaClade