def test_assembly_benchmark_with_no_refs(): path = os.path.join(tempfile.mkdtemp(), "quast") args = create_args(path) del args[4] # Delete the reference from the input arg list biobox.run(args) expected = os.path.join(path, "biobox.yaml") assert os.path.isfile(expected)
def test_short_read_assembler(): path = tempfile.mkdtemp() biobox.run(create_args(path)) expected = os.path.join(path, "contigs.fa") assert os.path.isfile(expected)
def test_assembly_benchmark_with_refs_and_non_existing_output(): path = os.path.join(tempfile.mkdtemp(), "quast") biobox.run(create_args(path)) expected = os.path.join(path, "biobox.yaml") assert os.path.isfile(expected)
def test_short_read_assembler(): # Will run the remove() function # Difficult to check this has worked though biobox.run(create_args(tempfile.mkdtemp()))