support for gzipped fastq

[defendant602]

It looks like pychopper do not support gzipped fastq file as input, as the code using fh = open(fname, "r") in utils.py.

just wonder will pychopper support using gzipped fastq file as input in the future?

Thanks.

[nrhorner]

HI @defendant602

Pychopper already supports gzipped input.

pychopper/pychopper/utils.py

Line 54 in 139cc1c

fh = opener(fname, "r")

it's actually fh = opener(fname, "r") not open(fname, "r")

opener comes from here:

pychopper/pychopper/scripts/pychopper.py

Line 211 in 139cc1c

def _opener(filename, mode, encoding='utf8'):