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evanbiederstedt avatar evanbiederstedt commented on July 28, 2024

So, this is also a README error, which is sort of obvious in retrospect.

The error is due to how one opens the FASTQ---users must open the file in binary. The following should fix the issue, using with open(myFastq, 'rb') as fh:

from fastqandfurious.fastqandfurious import entryfunc
from fastqandfurious import fastqandfurious

myFastq = "a/fastq/file.fq"

bufsize = 20000
with open(myFastq, 'rb') as fh:
    it = fastqandfurious.readfastq_iter(fh, bufsize, entryfunc)
    for sequence in it:
        print(sequence)

I'll revise in #6

from fastq-and-furious.

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