def testInsufficientData(self):
too_little = {
"adapters": "blah",
"biome": "blah",
"collection_date": "blah",
"experimental_factor": "blah",
"feature": "blah",
"findex": "blah",
"geo_loc_name": "blah",
"investigation_type": "blah",
"isol_growth_condt": "blah",
"lat_lon": "blah",
"lib_const_meth": "blah",
"lib_reads_seqd": "blah",
"lib_size": 500,
"lib_vector": "blah",
"material": "blah",
"nucl_acid_amp": "blah",
"nucl_acid_ext": "blah",
"pcr_primers": "blah",
"pcr_cond": "blah"
}
valid = MIMARKS.check_dict(too_little)
self.assertFalse(valid, "False return for insuffient data.")
def testInsufficientData(self):
""" Test the case of insufficient data. """
too_little = {
"adapters": "blah",
"biome": "blah",
"collection_date": "blah",
"experimental_factor": "blah",
"feature": "blah",
"findex": "blah",
"geo_loc_name": "blah",
"investigation_type": "blah",
"isol_growth_condt": "blah",
"lat_lon": "blah",
"lib_const_meth": "blah",
"lib_reads_seqd": "blah",
"lib_size": 500,
"lib_vector": "blah",
"material": "blah",
"nucl_acid_amp": "blah",
"nucl_acid_ext": "blah",
"pcr_primers": "blah",
"pcr_cond": "blah"
}
valid = MIMARKS.check_dict(too_little)
self.assertFalse(valid, "False return for insuffient data.")
def testRequiredFields(self):
required = (MIMARKS.required_fields())
self.assertEqual(type(required), tuple,
"required_fields() returns a list.")
self.assertTrue(
len(required) > 0, "required_fields() return is not empty.")
def testSuperfluousData(self):
""" Test the case of too much data. """
too_much = {
"adapters": "blah",
"biome": "blah",
"collection_date": "blah",
"experimental_factor": "blah",
"feature": "blah",
"findex": "blah",
"geo_loc_name": "blah",
"investigation_type": "blah",
"isol_growth_condt": "blah",
"lat_lon": "blah",
"lib_const_meth": "blah",
"lib_reads_seqd": "blah",
"lib_size": 500,
"lib_vector": "blah",
"material": "blah",
"nucl_acid_amp": "blah",
"nucl_acid_ext": "blah",
"pcr_primers": "blah",
"pcr_cond": "blah",
"project_name": "blah",
"rel_to_oxygen": "blah",
"rindex": "blah",
"samp_collect_device": "blah",
"samp_mat_process": "blah",
"samp_size": "blah",
"seq_meth": "blah",
"sop": ["a", "b", "c"],
"source_mat_id": ["a", "b", "c"],
"submitted_to_insdc": True,
"target_gene": "blah",
"target_subfragment": "blah",
"url": ["a", "b", "c"],
# And now for some spurious data...
"joffrey": "lanister"
}
valid = MIMARKS.check_dict(too_much)
self.assertFalse(valid, "False return for superfluous data.")
def testSuperfluousData(self):
too_much = {
"adapters": "blah",
"biome": "blah",
"collection_date": "blah",
"experimental_factor": "blah",
"feature": "blah",
"findex": "blah",
"geo_loc_name": "blah",
"investigation_type": "blah",
"isol_growth_condt": "blah",
"lat_lon": "blah",
"lib_const_meth": "blah",
"lib_reads_seqd": "blah",
"lib_size": 500,
"lib_vector": "blah",
"material": "blah",
"nucl_acid_amp": "blah",
"nucl_acid_ext": "blah",
"pcr_primers": "blah",
"pcr_cond": "blah",
"project_name": "blah",
"rel_to_oxygen": "blah",
"rindex": "blah",
"samp_collect_device": "blah",
"samp_mat_process": "blah",
"samp_size": "blah",
"seq_meth": "blah",
"sop": ["a", "b", "c"],
"source_mat_id": ["a", "b", "c"],
"submitted_to_insdc": True,
"target_gene": "blah",
"target_subfragment": "blah",
"url": ["a", "b", "c"],
# And now for some spurious data...
"joffrey": "lanister"
}
valid = MIMARKS.check_dict(too_much)
self.assertFalse(valid, "False return for superfluous data.")
def testValidData(self):
""" Test a valid dictionary (nothing missing, nothing superfluous). """
just_right = {
"adapters": "blah",
"biome": "blah",
"collection_date": "blah",
"experimental_factor": "blah",
"feature": "blah",
"findex": "blah",
"geo_loc_name": "blah",
"investigation_type": "blah",
"isol_growth_condt": "blah",
"lat_lon": "blah",
"lib_const_meth": "blah",
"lib_reads_seqd": "blah",
"lib_size": 500,
"lib_vector": "blah",
"material": "blah",
"nucl_acid_amp": "blah",
"nucl_acid_ext": "blah",
"pcr_primers": "blah",
"pcr_cond": "blah",
"project_name": "blah",
"rel_to_oxygen": "blah",
"rindex": "blah",
"samp_collect_device": "blah",
"samp_mat_process": "blah",
"samp_size": "blah",
"seq_meth": "blah",
"sop": ["a", "b", "c"],
"source_mat_id": ["a", "b", "c"],
"submitted_to_insdc": True,
"target_gene": "blah",
"target_subfragment": "blah",
"url": ["a", "b", "c"]
}
valid = MIMARKS.check_dict(just_right)
self.assertTrue(valid, "True return for valid data.")
def testValidData(self):
just_right = {
"adapters": "blah",
"biome": "blah",
"collection_date": "blah",
"experimental_factor": "blah",
"feature": "blah",
"findex": "blah",
"geo_loc_name": "blah",
"investigation_type": "blah",
"isol_growth_condt": "blah",
"lat_lon": "blah",
"lib_const_meth": "blah",
"lib_reads_seqd": "blah",
"lib_size": 500,
"lib_vector": "blah",
"material": "blah",
"nucl_acid_amp": "blah",
"nucl_acid_ext": "blah",
"pcr_primers": "blah",
"pcr_cond": "blah",
"project_name": "blah",
"rel_to_oxygen": "blah",
"rindex": "blah",
"samp_collect_device": "blah",
"samp_mat_process": "blah",
"samp_size": "blah",
"seq_meth": "blah",
"sop": ["a", "b", "c"],
"source_mat_id": ["a", "b", "c"],
"submitted_to_insdc": True,
"target_gene": "blah",
"target_subfragment": "blah",
"url": ["a", "b", "c"]
}
valid = MIMARKS.check_dict(just_right)
self.assertTrue(valid, "True return for valid data.")
def testRequiredFields(self):
required = (MIMARKS.required_fields())
self.assertEqual(type(required), tuple, "required_fields() returns a list.")
self.assertTrue(len(required) > 0, "required_fields() return is not empty.")