[docs]def fastqWriter(read,prefix):
"""write reads to fastqs
"""
if read.filter:
return
fq1 = prefix + "_R1.fastq"
fq2 = prefix + "_R2.fastq"
fp1 = open(fq1,"a")
fp2 = open(fq2,"a")
line1 = read.r1.id + "\n"
line2 = read.r1.seq + "\n"
line3 = read.r1.flag + "\n"
line4 = read.r1.qual + "\n"
fp1.write(line1)
fp1.write(line2)
fp1.write(line3)
fp1.write(line4)
fp1.close()
line1 = read.r2.id + "\n"
line2 = read.r2.seq + "\n"
line3 = read.r2.flag + "\n"
line4 = read.r2.qual + "\n"
fp2.write(line1)
fp2.write(line2)
fp2.write(line3)
fp2.write(line4)
fp2.close()