def getAllAPI():
"""
get all the Bacteria on the database
:return: list of Bacteria
:rtype: vector[BacteriuJson]
"""
list_bacteria = BacteriumAPI().get_all()
schema = BacteriumSchema()
results = schema.load(list_bacteria, many=True)
return results
def getByID(id_bacterium: int):
"""
get a bacterium given its id
:param id_bacterium: id of the bacterium that it will be returned
:type id_bacteriophage: int
:return: a json of the bacterium
:rtype: BacteriumJson
"""
bacterium = BacteriumAPI().get_by_id(id_bacterium)
schema = BacteriumSchema()
results = schema.load(bacterium, many=False)
return results
def getByAccnumber(acc_number: str):
"""
get a bacterium given its acc
:param acc_number: acc of the bacterium that it will be returned
:type acc_number: String
:return: a json of the bacterium
:rtype: BacteriumJson
"""
bacterium = BacteriumAPI().getBacteriumByAcc(acc_number)
schema = BacteriumSchema()
results = schema.load(bacterium, many=False)
return results[0]
def verifiyBacteriumExistanceByAcc(acc_value):
"""
Verify if a bacterium exists according an accValue
:param acc_value: accession number of the bacterium that you want to check the existence
:type acc_value: string
:return: return True or False according the existence
:rtype: boolean
"""
resultsCreation = BacteriumAPI().setBacteriumExistsByAcc(
acc_value=acc_value)
bacterium_existence = resultsCreation['value']['bacterium_exists']
return bacterium_existence
def setBacterium(self):
"""
set new bacterium
:return: new bacterium completed with the id
:rtype: BacteriumJson
"""
schema = BacteriumSchema(only=[
'acc_number', 'gi_number', 'source_data', 'person_responsible',
'strain'
])
jsonBacterium = schema.dump(self)
resultsCreation = BacteriumAPI().set_bacterium(
jsonData=jsonBacterium.data)
schema = BacteriumSchema()
results = schema.load(resultsCreation)
return results[0]