def test_create_control_sample_type(self):
SampleComposition.create_control_sample_type('testing.control',
'A test')
obs = SampleComposition.get_control_sample_types_description()
exp = [{
'external_id':
'blank',
'description':
'gDNA extraction blanks. Represents an empty '
'extraction well.'
}, {
'external_id':
'empty',
'description':
'Empty well. Represents an empty well that should '
'not be included in library preparation.'
}, {
'external_id': 'testing.control',
'description': 'A test'
}, {
'external_id':
'vibrio.positive.control',
'description':
'Bacterial isolate control (Vibrio fischeri ES114)'
'. Represents an extraction well loaded with '
'Vibrio.'
}, {
'external_id':
'zymo.mock',
'description':
'Bacterial community control (Zymo Mock D6306). '
'Represents an extraction well loaded with Zymo '
'Mock community.'
}]
self.assertEqual(obs, exp)
def plate_map_handler_get_request(process_id):
plate_id = None
if process_id is not None:
try:
process = SamplePlatingProcess(process_id)
except LabmanUnknownIdError:
raise HTTPError(404,
reason="Plating process %s doesn't exist" %
process_id)
plate_id = process.plate.id
plate_confs = [[pc.id, pc.description, pc.num_rows, pc.num_columns]
for pc in PlateConfiguration.iter()
if 'template' not in pc.description]
cdesc = SampleComposition.get_control_sample_types_description()
return {
'plate_confs': plate_confs,
'plate_id': plate_id,
'process_id': process_id,
'controls_description': cdesc
}
def test_post_manage_controls_handler(self):
response = self.post('/sample/manage_controls', {
'external_id': 'zzTestControl',
'description': 'A test control'
})
self.assertEqual(response.code, 200)
obs = SampleComposition.get_control_sample_types_description()
exp = [{
'external_id':
'blank',
'description':
'gDNA extraction blanks. Represents an empty '
'extraction well.'
}, {
'external_id':
'empty',
'description':
'Empty well. Represents an empty well that should '
'not be included in library preparation.'
}, {
'external_id':
'vibrio.positive.control',
'description':
'Bacterial isolate control (Vibrio fischeri ES114)'
'. Represents an extraction well loaded with '
'Vibrio.'
}, {
'external_id':
'zymo.mock',
'description':
'Bacterial community control (Zymo Mock D6306). '
'Represents an extraction well loaded with Zymo '
'Mock community.'
}, {
'external_id': 'zzTestControl',
'description': 'A test control'
}]
self.assertEqual(obs, exp)
def get(self):
controls = SampleComposition.get_control_sample_types_description()
self.render('controls.html', controls=controls)
