import P1
import P2
import P3
import P4
labelSequenceList = P1.ParseSeqFile("P1_sequences.txt")
print(labelSequenceList)
alignedSequencesDict = P2.AlignByDP(labelSequenceList)
print(alignedSequencesDict)
distMatrix = P3.ComputeDistMatrix(alignedSequencesDict)
print(distMatrix)
labelList = [
"Mouse", "Bovine", "Gibbon", "Orangutan", "Gorilla", "Chimp", "Human"
]
binaryTreeString = P4.Cluster(distMatrix, labelList)
print(binaryTreeString)
import P1
import P2
import P3
import P4
#RunCode
start1 = time.time()
a = P1.ParseSeqFile('sequencefile.txt')
end1 = time.time()
print('*******************\nParseSeqFile: \n*******************\n\n', a,
'\n\n')
labels = []
for tuples in a:
labels.append(tuples[0])
start2 = time.time()
b = P2.AlignByDP(a)
end2 = time.time()
print('*******************\nAlignByDP: \n*******************\n\n')
print(b, '\n\n')
start3 = time.time()
c = P3.ComputeDistMatrix(b)
end3 = time.time()
print('*******************\nComputeDistMatrix: \n*******************\n\n')
for line in c:
lines = []
for element in line:
lines.append('%010.8f' % element)
print(lines)
start4 = time.time()
d = P4.Cluster(c, labels)
end4 = time.time()
