Error running concatamer_filter.py

[bobbyshih]

I am running into issues running the conctamer_filter.py script detailed below:

$ python ~/readquant/scripts/concatamer_filter.py R1.fastq.gz R2.fastq.gz AAGCAGTGGTATCAACGCAGAGTACATGGG
Traceback (most recent call last):
  File "/home/bobbyshih/readquant/scripts/concatamer_filter.py", line 69, in <module>
    concata_filter()
  File "/usr/lib/python3/dist-packages/click/core.py", line 764, in __call__
    return self.main(*args, **kwargs)
  File "/usr/lib/python3/dist-packages/click/core.py", line 717, in main
    rv = self.invoke(ctx)
  File "/usr/lib/python3/dist-packages/click/core.py", line 956, in invoke
    return ctx.invoke(self.callback, **ctx.params)
  File "/usr/lib/python3/dist-packages/click/core.py", line 555, in invoke
    return callback(*args, **kwargs)
  File "/home/bobbyshih/readquant/scripts/concatamer_filter.py", line 60, in concata_filter
    for read in zip(r1, r2):
  File "/home/bobbyshih/readquant/scripts/concatamer_filter.py", line 17, in stream_fastq
    for i, line in enumerate(file_handler):
AttributeError: '_io.TextIOWrapper' object has no attribute 'readinto'. Did you mean: 'readline'?

Is there any advice for overcoming this?