Checks fastqlr fils against chunks

checker.py

from itertools import cycle

if __name__ == "__main__":
    f1 = open("./fastq1.fq")
    f2 = open("./fastq2.fq")
    reference = cycle([f1, f2])

    for i in range(8):
        print("Checking chunk{}".format(i))
        with open('./chunk{}'.format(i)) as chunkfile:
            for chunk in chunkfile:
                chunk = chunk.strip()
                ref_file = reference.next()
                ref = ""
                for i in range(4):
                    ref += ref_file.readline().strip()
                assert chunk == ref, "\n" + chunk + "\n" + ref