def test_post(self):
self.mock_login_admin()
kit_id = 'tst_vBKrP'
# this is the kit uuid for tst_vBKrP
kit_uuid = 'd8592c74-83f6-2135-e040-8a80115d6401'
n_barcodes = len(db.get_barcode_info_by_kit_id(kit_uuid))
response = self.post('/ag_add_barcode_kit/', {'kit_id': kit_id,
'num_barcodes': 1})
self.assertEqual(response.code, 200)
obs_n_barcodes = len(db.get_barcode_info_by_kit_id(kit_uuid))
self.assertEqual(n_barcodes + 1, obs_n_barcodes)
def test_post(self):
self.mock_login_admin()
ag_login_id = 'd8592c74-83f5-2135-e040-8a80115d6401'
kit_id = db.ut_get_supplied_kit_id(ag_login_id)
# this is the kit uuid for tst_vBKrP
kit_uuid = 'd8592c74-83f6-2135-e040-8a80115d6401'
n_barcodes = len(db.get_barcode_info_by_kit_id(kit_uuid))
response = self.post('/ag_add_barcode_kit/', {
'kit_id': kit_id,
'num_barcodes': 1
})
self.assertEqual(response.code, 200)
obs_n_barcodes = len(db.get_barcode_info_by_kit_id(kit_uuid))
self.assertEqual(n_barcodes + 1, obs_n_barcodes)
def post(self):
term = self.get_argument('search_term')
results = {}
# search participant info
logins = db.search_participant_info(term)
results = set(logins)
# search kit info and add to resluts
logins = db.search_kits(term)
results = results | set(logins)
# search barcode and add to results
logins = db.search_barcodes(term)
results = results | set(logins)
# search handout kits
handouts = db.search_handout_kits(term)
# now take the ag_login_ids and collect the information to display
display_results = [] # list of dictionatries
for login in results:
login_display = {}
login_display['login_info'] = db.get_login_info(login)
login_display['humans'] = db.getHumanParticipants(
login)
login_display['animals'] = db.getAnimalParticipants(
login)
login_display['kit'] = db.get_kit_info_by_login(login)
for kit in login_display['kit']:
barcode_info = {}
ag_barcodes = db.get_barcode_info_by_kit_id(
kit['ag_kit_id'])
barcode_info = {}
for ag_barcode in ag_barcodes:
barcode_info[ag_barcode['barcode']] = {}
barcode_info[ag_barcode['barcode']]['ag_info'] = ag_barcode
lab_barcode_info = db.get_barcode_details(
ag_barcode['barcode'])
plate = db.get_plate_for_barcode(
ag_barcode['barcode'])
barcode_info[ag_barcode['barcode']]['barcode_info'] = \
lab_barcode_info
barcode_info[ag_barcode['barcode']]['plate'] = plate
kit['barcode_info'] = barcode_info
display_results.append(login_display)
# now render the page
self.render("ag_search.html",
results=display_results,
handouts=handouts,
currentuser=self.current_user)
def test_post_barcode(self):
self.mock_login_admin()
search_term = '000028538'
response = self.post('/ag_search/', {'search_term': search_term})
self.assertEqual(response.code, 200)
for barcode in db.search_barcodes(search_term):
kit_id = db.get_kit_info_by_login(barcode)[0]['ag_kit_id']
for sample in db.get_barcode_info_by_kit_id(kit_id):
for field in sample:
if sample[field] is not None:
if (field == 'ag_kit_id') or (
field == 'ag_kit_barcode_id'):
self.assertNotIn(sample[field], response.body)
else:
self.assertIn(sample[field], response.body)
def test_get_barcode_info_by_kit_id(self):
obs = db.get_barcode_info_by_kit_id(
'0060a301-e5c0-6a4e-e050-8a800c5d49b7')
exp = [{'ag_kit_id': '0060a301-e5c0-6a4e-e050-8a800c5d49b7',
'environment_sampled': None,
'sample_time': datetime.time(11, 15),
'notes': 'REMOVED',
'barcode': '000018046',
'results_ready': 'Y',
'refunded': None,
'participant_name': 'REMOVED-0',
'ag_kit_barcode_id': '0060a301-e5c1-6a4e-e050-8a800c5d49b7',
'sample_date': datetime.date(2014, 8, 13),
'withdrawn': None,
'site_sampled': 'Stool'}]
self.assertEqual(obs, exp)
def test_post_barcode(self):
self.mock_login_admin()
search_term = '000028538'
response = self.post('/ag_search/', {'search_term': search_term})
self.assertEqual(response.code, 200)
for barcode in db.search_barcodes(search_term):
kit_id = db.get_kit_info_by_login(barcode)[0]['ag_kit_id']
for sample in db.get_barcode_info_by_kit_id(kit_id):
for field in sample:
if sample[field] is not None:
if (field == 'ag_kit_id') or \
(field == 'ag_kit_barcode_id'):
self.assertNotIn(sample[field], response.body)
else:
exp = xhtml_escape_recursive(sample[field])
self.assertIn(str(exp), response.body)
def post(self):
term = self.get_argument('search_term')
results = {}
# search participant info
logins = db.search_participant_info(term)
results = set(logins)
# search kit info and add to resluts
logins = db.search_kits(term)
results = results | set(logins)
# search barcode and add to results
logins = db.search_barcodes(term)
results = results | set(logins)
# search handout kits
handouts = db.search_handout_kits(term)
# now take the ag_login_ids and collect the information to display
display_results = [] # list of dictionatries
for login in results:
login_display = {}
login_display['login_info'] = db.get_login_info(login)
login_display['humans'] = db.getHumanParticipants(
login)
login_display['animals'] = db.getAnimalParticipants(
login)
login_display['kit'] = db.get_kit_info_by_login(login)
for kit in login_display['kit']:
barcode_info = {}
ag_barcodes = db.get_barcode_info_by_kit_id(
kit['ag_kit_id'])
barcode_info = {}
for ag_barcode in ag_barcodes:
barcode_info[ag_barcode['barcode']] = {}
barcode_info[ag_barcode['barcode']]['ag_info'] = ag_barcode
lab_barcode_info = db.get_barcode_details(
ag_barcode['barcode'])
plate = db.get_plate_for_barcode(
ag_barcode['barcode'])
barcode_info[ag_barcode['barcode']]['barcode_info'] = \
lab_barcode_info
barcode_info[ag_barcode['barcode']]['plate'] = plate
kit['barcode_info'] = barcode_info
display_results.append(login_display)
# now render the page
self.render("ag_search.html", results=display_results,
handouts=handouts, currentuser=self.current_user)
def test_get_barcode_info_by_kit_id(self):
obs = db.get_barcode_info_by_kit_id(
'0060a301-e5c0-6a4e-e050-8a800c5d49b7')[0]
exp = {'ag_kit_id': '0060a301-e5c0-6a4e-e050-8a800c5d49b7',
'environment_sampled': None,
'sample_time': datetime.time(11, 15),
# 'notes': 'REMOVED',
'barcode': '000018046',
'results_ready': 'Y',
'refunded': None,
# 'participant_name': 'REMOVED-0',
'ag_kit_barcode_id': '0060a301-e5c1-6a4e-e050-8a800c5d49b7',
'sample_date': datetime.date(2014, 8, 13),
'withdrawn': None,
'site_sampled': 'Stool'}
# only look at those fields, that are not subject to scrubbing
self.assertEqual({k: obs[k] for k in exp}, exp)
def test_get_barcode_info_by_kit_id(self):
obs = db.get_barcode_info_by_kit_id(
'0060a301-e5c0-6a4e-e050-8a800c5d49b7')[0]
exp = {'ag_kit_id': '0060a301-e5c0-6a4e-e050-8a800c5d49b7',
'environment_sampled': None,
'sample_time': datetime.time(11, 15),
# 'notes': 'REMOVED',
'barcode': '000018046',
'results_ready': 'Y',
'refunded': None,
# 'participant_name': 'REMOVED-0',
'ag_kit_barcode_id': '0060a301-e5c1-6a4e-e050-8a800c5d49b7',
'sample_date': datetime.date(2014, 8, 13),
'withdrawn': None,
'site_sampled': 'Stool'}
# only look at those fields, that are not subject to scrubbing
self.assertEqual({k: obs[k] for k in exp}, exp)
def test_get_barcode_info_by_kit_id(self):
obs = db.get_barcode_info_by_kit_id(
'0060a301-e5c0-6a4e-e050-8a800c5d49b7')
exp = [{
'ag_kit_id': '0060a301-e5c0-6a4e-e050-8a800c5d49b7',
'environment_sampled': None,
'sample_time': datetime.time(11, 15),
'notes': 'REMOVED',
'barcode': '000018046',
'results_ready': 'Y',
'refunded': None,
'participant_name': 'REMOVED-0',
'ag_kit_barcode_id': '0060a301-e5c1-6a4e-e050-8a800c5d49b7',
'sample_date': datetime.date(2014, 8, 13),
'withdrawn': None,
'site_sampled': 'Stool'
}]
self.assertEqual(obs, exp)
def test_get_barcode_info_by_kit_id(self):
obs = db.get_barcode_info_by_kit_id("0060a301-e5c0-6a4e-e050-8a800c5d49b7")
exp = [
{
"ag_kit_id": "0060a301-e5c0-6a4e-e050-8a800c5d49b7",
"environment_sampled": None,
"sample_time": datetime.time(11, 15),
"notes": "REMOVED",
"barcode": "000018046",
"results_ready": "Y",
"refunded": None,
"participant_name": "REMOVED-0",
"ag_kit_barcode_id": "0060a301-e5c1-6a4e-e050-8a800c5d49b7",
"sample_date": datetime.date(2014, 8, 13),
"withdrawn": None,
"site_sampled": "Stool",
}
]
self.assertEqual(obs, exp)
