def test_uclust_search_and_align_from_fasta_filepath(self):
""" uclust_search_and_align_from_fasta_filepath functions as expected """
# rev comp matches allowed (default)
actual = list(uclust_search_and_align_from_fasta_filepath(
self.search_align_query1_fp,self.search_align_template1_fp))
self.assertEqual(actual,self.search_align_out1_expected)
# rev comp matches not allowed
actual = list(uclust_search_and_align_from_fasta_filepath(
self.search_align_query1_fp,self.search_align_template1_fp,
enable_rev_strand_matching=False))
self.assertEqual(actual,self.search_align_out1_expected[:2])
def test_uclust_search_and_align_from_fasta_filepath(self):
""" uclust_search_and_align_from_fasta_filepath functions as expected """
# rev comp matches allowed (default)
actual = list(uclust_search_and_align_from_fasta_filepath(
self.search_align_query1_fp,self.search_align_template1_fp))
self.assertEqual(actual,self.search_align_out1_expected)
# rev comp matches not allowed
actual = list(uclust_search_and_align_from_fasta_filepath(
self.search_align_query1_fp,self.search_align_template1_fp,
enable_rev_strand_matching=False))
self.assertEqual(actual,self.search_align_out1_expected[:2])
def test_uclust_search_and_align_from_fasta_filepath_protein(self):
""" uclust_search_and_align_from_fasta_filepath functions with protein """
# rev comp matches allowed (default)
actual = list(
uclust_search_and_align_from_fasta_filepath(
self.search_align_query2_fp, self.search_align_template2_fp))
self.assertEqual(actual, self.search_align_out2_expected)
def test_uclust_search_and_align_from_fasta_filepath_protein(self):
""" uclust_search_and_align_from_fasta_filepath functions with protein """
# rev comp matches allowed (default)
actual = list(uclust_search_and_align_from_fasta_filepath(
self.search_align_query2_fp,self.search_align_template2_fp))
self.assertEqual(actual,self.search_align_out2_expected)