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#cython: language_level=3
'''
Created on oct 14th 2018
@author: celine.mercier.bioinfo@gmail.com
'''
cdef class FastqWriter:
def __init__(self,
object formatter,
object output_object,
int skip=0,
only=None):
self.formatter = formatter
self.output = output_object
if only is None:
self.only = -1
else:
self.only = int(only)
self.formatter = formatter
self.output = output_object
self.skip = skip
self.skipped = 0
self.read = 0
def __call__(self, object seq):
if self.only > -1 and self.read == self.only:
raise StopIteration
if self.skip > 0 and self.skipped < self.skip:
self.skipped += 1
return
self.output.write(self.formatter(seq))
self.output.write(b"\n") # TODO is that clean?
self.read += 1
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