def parse_input_file_train_test(kernelname, argv):
"""Parse the input and output file names"""
if len(argv)<3 or (argv[0]=="fasta" and len(argv)<4) or (argv[0]!='fasta' and argv[0]!='arff'):
sys.stderr.write("data usage: arff <train.arff> <test.arff>\n or: fasta <train_pos.fa> <train_neg.fa> <test.fa>\n")
sys.exit(-1)
if argv[0] == 'fasta':
datafilenamepos = argv[1]
datafilenameneg = argv[2]
datafilenametest = argv[3]
(trainex, trainlab) = datagen.fastaread(datafilenamepos, datafilenameneg)
(testex, testlab) = datagen.fastaread(datafilenametest)
argv_rest=argv[4:]
elif argv[0] == 'arff':
datafilename = argv[1]
datafilenametest = argv[2]
(trainex, trainlab) = datagen.arffread(kernelname, datafilename)
(testex, testlab) = datagen.arffread(kernelname, datafilenametest)
argv_rest=argv[3:]
else:
print 'Error in parse_input_file'
return (trainex,trainlab,testex,argv_rest)
def parse_input_file_train(kernelname, argv):
"""Parse the input and output file names"""
if len(argv)<2 or (argv[0]=="fasta" and len(argv)<3) or (argv[0]!='fasta' and argv[0]!='arff'):
sys.stderr.write("data usage: arff <train.arff>\n or: fasta <train_pos.fa> <train_neg.fa>\n")
sys.exit(-1)
if argv[0] == 'fasta':
datafilenamepos = argv[1]
datafilenameneg = argv[2]
(examples, labels) = datagen.fastaread(datafilenamepos, datafilenameneg)
argv_rest=argv[3:]
elif argv[0] == 'arff':
datafilename = argv[1]
(examples, labels) = datagen.arffread(kernelname, datafilename)
argv_rest=argv[2:]
else:
print 'Error in parse_input_file'
return (examples,labels,argv_rest)