from __future__ import print_function, division

from cutadapt.seqio import ColorspaceSequence
from cutadapt.adapters import ColorspaceAdapter, PREFIX
from cutadapt.scripts.cutadapt import AdapterCutter

def test_cs_5p():
	read = ColorspaceSequence("name", "0123", "DEFG", "T")
	adapter = ColorspaceAdapter("CG", PREFIX, 0.1)
	cutter = AdapterCutter([adapter])
	matches = cutter.find_matches(read)
	# no assertion here, just make sure the above code runs without
	# an exception

from __future__ import print_function, division

from cutadapt.seqio import ColorspaceSequence, Sequence
from cutadapt.adapters import Adapter, ColorspaceAdapter, PREFIX, BACK
from cutadapt.scripts.cutadapt import AdapterCutter

def test_cs_5p():
	read = ColorspaceSequence("name", "0123", "DEFG", "T")
	adapter = ColorspaceAdapter("CG", PREFIX, 0.1)
	cutter = AdapterCutter([adapter])
	matches = cutter.find_matches(read)
	# no assertion here, just make sure the above code runs without
	# an exception


def test_statistics():
	read = Sequence('name', 'AAAACCCCGGGG')
	adapters = [Adapter('CCCC', BACK, 0.1), Adapter('TTTT', BACK, 0.1)]
	cutter = AdapterCutter(adapters, times=3)
	trimmed_read = cutter(read)
	# TODO make this a lot simpler
	trimmed_bp = 0
	for adapter in adapters:
		for d in (adapter.lengths_front, adapter.lengths_back):
			trimmed_bp += sum(seqlen * count for (seqlen, count) in d.items())
	assert trimmed_bp <= len(read), trimmed_bp

Test for bug: too many trimmed bases reported
Test for bug: too many trimmed bases reported
