Python generate_parameters_string Examples

Example #1

File: test_split_libraries.py Project: anupriyatripathi/qiita

 def test_generate_parameters_string_error(self):
     parameters = {
         "min_seq_len": 200, "max_seq_len": 1000, "trim_seq_length": False,
         "min_qual_score": 25, "max_ambig": 6, "max_homopolymer": 6,
         "max_primer_mismatch": 0, "barcode_type": "golay_12",
         "max_barcode_errors": 1.5, "disable_bc_correction": False,
         "qual_score_window": 0, "disable_primers": False,
         "reverse_primers": "whops", "reverse_primer_mismatches": 0,
         "truncate_ambi_bases": False, "input_data": 1}
     with self.assertRaises(ValueError):
         generate_parameters_string(parameters)

Example #2

File: test_split_libraries.py Project: mjunaidi/qiita

 def test_generate_parameters_string(self):
     parameters = {
         "min_seq_len": 200,
         "max_seq_len": 1000,
         "trim_seq_length": False,
         "min_qual_score": 25,
         "max_ambig": 6,
         "max_homopolymer": 6,
         "max_primer_mismatch": 0,
         "barcode_type": "golay_12",
         "max_barcode_errors": 1.5,
         "disable_bc_correction": False,
         "qual_score_window": 0,
         "disable_primers": False,
         "reverse_primers": "disable",
         "reverse_primer_mismatches": 0,
         "truncate_ambi_bases": False,
         "input_data": 1
     }
     obs = generate_parameters_string(parameters)
     exp = ("--min_seq_len 200 --max_seq_len 1000 --min_qual_score 25 "
            "--max_ambig 6 --max_homopolymer 6 --max_primer_mismatch 0 "
            "--barcode_type golay_12 --max_barcode_errors 1.5 "
            "--qual_score_window 0 --reverse_primer_mismatches 0 "
            "--reverse_primers disable")
     self.assertEqual(obs, exp)

Example #3

File: test_split_libraries.py Project: mjunaidi/qiita

 def test_generate_parameters_string_error(self):
     parameters = {
         "min_seq_len": 200,
         "max_seq_len": 1000,
         "trim_seq_length": False,
         "min_qual_score": 25,
         "max_ambig": 6,
         "max_homopolymer": 6,
         "max_primer_mismatch": 0,
         "barcode_type": "golay_12",
         "max_barcode_errors": 1.5,
         "disable_bc_correction": False,
         "qual_score_window": 0,
         "disable_primers": False,
         "reverse_primers": "whops",
         "reverse_primer_mismatches": 0,
         "truncate_ambi_bases": False,
         "input_data": 1
     }
     with self.assertRaises(ValueError):
         generate_parameters_string(parameters)

Example #4

File: test_split_libraries.py Project: anupriyatripathi/qiita

 def test_generate_parameters_string(self):
     parameters = {
         "min_seq_len": 200, "max_seq_len": 1000, "trim_seq_length": False,
         "min_qual_score": 25, "max_ambig": 6, "max_homopolymer": 6,
         "max_primer_mismatch": 0, "barcode_type": "golay_12",
         "max_barcode_errors": 1.5, "disable_bc_correction": False,
         "qual_score_window": 0, "disable_primers": False,
         "reverse_primers": "disable", "reverse_primer_mismatches": 0,
         "truncate_ambi_bases": False, "input_data": 1}
     obs = generate_parameters_string(parameters)
     exp = ("--min_seq_len 200 --max_seq_len 1000 --min_qual_score 25 "
            "--max_ambig 6 --max_homopolymer 6 --max_primer_mismatch 0 "
            "--barcode_type golay_12 --max_barcode_errors 1.5 "
            "--qual_score_window 0 --reverse_primer_mismatches 0 "
            "--reverse_primers disable")
     self.assertEqual(obs, exp)