def test_mt1_mt3_disagree_3p_alt_cut(self, mt1_yes_seed_shifted_yes_3p_alt_cut, mt3_yes_seed_shifted_no_3p_alt_cut): d = ModificationThing.disagreements([ mt1_yes_seed_shifted_yes_3p_alt_cut, mt3_yes_seed_shifted_no_3p_alt_cut]) assert d == ('is_3p_alt_cut',)
def test_mt1_mt3_disagree_3p_alt_cut(self, mt1_yes_seed_shifted_yes_3p_alt_cut, mt3_yes_seed_shifted_no_3p_alt_cut): d = ModificationThing.disagreements([ mt1_yes_seed_shifted_yes_3p_alt_cut, mt3_yes_seed_shifted_no_3p_alt_cut ]) assert d == ('is_3p_alt_cut', )
def test_other_edited_n17_and_3p_mismatch_with_seed_shift_ex_21b_minus( self, main_hit_B_, ex_21b_): m = ModificationThing(main_hit_B_, ex_21b_) assert m.is_other_edited assert m.is_3p_mismatch assert m.is_seed_shifted
def test_other_edited_n17_with_seed_shift_ex_20b(self, main_hit_B, ex_20b): m = ModificationThing(main_hit_B, ex_20b) assert m.is_other_edited assert not m.is_3p_mismatch assert m.is_seed_shifted
def test_3p_mismatch_with_seed_shift_ex_9b_minus(self, main_hit_B_, ex_9b_): m = ModificationThing(main_hit_B_, ex_9b_) assert m.is_3p_mismatch assert m.is_seed_shifted assert not m.is_3p_alt_cut
def test_3p_alt_cut_with_seed_shift_ex_7b(self, main_hit_B, ex_7b): m = ModificationThing(main_hit_B, ex_7b) assert m.is_3p_alt_cut assert m.is_seed_shifted assert not m.is_3p_mismatch
def test_mismatches_coords_ex_2(self, main_hit_A, ex_2): m = ModificationThing(main_hit_A, ex_2) assert (11, 16, 17) == m._mismatches_coords(main_hit_A, ex_2)
def test_mt2_mt2_no_disagree(self, mt2_no_seed_shifted_yes_3p_alt_cut): d = ModificationThing.disagreements([ mt2_no_seed_shifted_yes_3p_alt_cut, mt2_no_seed_shifted_yes_3p_alt_cut ]) assert d == ()
def mt1_yes_seed_shifted_yes_3p_alt_cut( self, main_hit_B, hit_yes_seed_shifted_yes_3p_alt_cut): return ModificationThing(main_hit_B, hit_yes_seed_shifted_yes_3p_alt_cut)
def test_mismatches_coords_ex_2_minus(self, main_hit_A_, ex_2_): m = ModificationThing(main_hit_A_, ex_2_) assert (9, 14, 15) == m._mismatches_coords(main_hit_A_, ex_2_)
def test_mismatches_coords_ex_2(self, main_hit_A, ex_2): m = ModificationThing(main_hit_A, ex_2) assert (11, 16, 17) == m._mismatches_coords(main_hit_A, ex_2)
def test_mismatches_coords_ex_1_minus(self, main_hit_A_, ex_1_): m = ModificationThing(main_hit_A_, ex_1_) assert (0, 11, 16, 17) == m._mismatches_coords(main_hit_A_, ex_1_)
def test_mt2_mt2_no_disagree(self, mt2_no_seed_shifted_yes_3p_alt_cut): d = ModificationThing.disagreements([ mt2_no_seed_shifted_yes_3p_alt_cut, mt2_no_seed_shifted_yes_3p_alt_cut]) assert d == ()
def test_mismatches_coords_ex_2_minus(self, main_hit_A_, ex_2_): m = ModificationThing(main_hit_A_, ex_2_) assert (9, 14, 15) == m._mismatches_coords(main_hit_A_, ex_2_)
def test_not_other_edited_n16_no_seed_shift_3p_mismatch_ex_23a( self, main_hit_B, ex_23a): m = ModificationThing(main_hit_B, ex_23a) assert not m.is_other_edited assert m.is_3p_mismatch assert not m.is_seed_shifted
def test_not_other_edited_n16_seed_shift_3p_mismatch_ex_24b_minus( self, main_hit_B_, ex_24b_): m = ModificationThing(main_hit_B_, ex_24b_) assert not m.is_other_edited assert m.is_3p_mismatch assert m.is_seed_shifted
def test_3p_mismatch_ex_4a(self, main_hit_B, ex_4a): m = ModificationThing(main_hit_B, ex_4a) assert m.is_3p_mismatch assert not m.is_seed_shifted assert not m.is_3p_alt_cut
def mt4_no_seed_shifted_no_3p_alt_cut(self, main_hit_B, hit_no_seed_shifted_no_3p_alt_cut): return ModificationThing(main_hit_B, hit_no_seed_shifted_no_3p_alt_cut)
def test_3p_mismatch_and_3p_alt_cut_ex_5d_minus(self, main_hit_B_, ex_5d_): m = ModificationThing(main_hit_B_, ex_5d_) assert m.is_3p_mismatch assert m.is_3p_alt_cut assert not m.is_seed_shifted
def test_3p_alt_cut_with_seed_shift_ex_7a_minus(self, main_hit_B_, ex_7a_): # minus strand m = ModificationThing(main_hit_B_, ex_7a_) assert m.is_3p_alt_cut assert m.is_seed_shifted assert not m.is_3p_mismatch
def test_mismatches_coords_ex_1_minus(self, main_hit_A_, ex_1_): m = ModificationThing(main_hit_A_, ex_1_) assert (0, 11, 16, 17) == m._mismatches_coords(main_hit_A_, ex_1_)