def test_search_kits(self):
obs = db.search_kits('tst_IueFX')
self.assertEqual(['ded5101d-c8e3-f6b3-e040-8a80115d6f03'], obs)
obs = db.search_kits('e1934dfe-8537-6dce-e040-8a80115d2da9')
self.assertEqual(['e1934ceb-6e92-c36a-e040-8a80115d2d64'], obs)
obs = db.search_kits('000001124')
self.assertEqual([], obs)
def test_search_kits(self):
obs = db.search_kits("tst_IueFX")
self.assertEqual(["ded5101d-c8e3-f6b3-e040-8a80115d6f03"], obs)
obs = db.search_kits("e1934dfe-8537-6dce-e040-8a80115d2da9")
self.assertEqual(["e1934ceb-6e92-c36a-e040-8a80115d2d64"], obs)
obs = db.search_kits("000001124")
self.assertEqual([], obs)
def test_search_kits(self):
obs = db.search_kits('tst_IueFX')
self.assertEqual(['ded5101d-c8e3-f6b3-e040-8a80115d6f03'], obs)
obs = db.search_kits('e1934dfe-8537-6dce-e040-8a80115d2da9')
self.assertEqual(['e1934ceb-6e92-c36a-e040-8a80115d2d64'], obs)
obs = db.search_kits('000001124')
self.assertEqual([], obs)
def test_search_kits(self):
# obtain current test data from DB
ag_login_id = 'd8592c74-7cf9-2135-e040-8a80115d6401'
kits = db.get_kit_info_by_login(ag_login_id)
# check if ag_login_id is regain with supplied_kit_id
obs = db.search_kits(kits[0]['supplied_kit_id'])
self.assertEqual([ag_login_id], obs)
# check if kit_id is found by search
obs = db.search_kits('e1934dfe-8537-6dce-e040-8a80115d2da9')
self.assertEqual(['e1934ceb-6e92-c36a-e040-8a80115d2d64'], obs)
# check that a non existing kit is not found
obs = db.search_kits('990001124')
self.assertEqual([], obs)
def test_get(self):
self.mock_login_admin()
# check that error is raised for unknown barcode
response = self.get("/ag_edit_barcode/", {"barcode": "unknown"})
self.assertEqual(response.code, 500)
# make sure return code 400 is returned, if barcode is not given
response = self.get("/ag_edit_barcode/", {})
self.assertEqual(response.code, 400)
# check if page is rendered properly
barcode = db.get_barcodes_with_results()[0]
response = self.get("/ag_edit_barcode/", {"barcode": barcode})
self.assertEqual(response.code, 200)
details = db.getAGBarcodeDetails(barcode)
l = db.search_kits(details["ag_kit_id"])[0]
self.assertIn('name="barcode" id="barcode" value="%s"' % barcode, response.body)
for s in db.human_sites:
if details["site_sampled"] == str(s):
self.assertIn('<option value="%s" selected>%s</option>' % (str(s), str(s)), response.body)
else:
self.assertIn('<option value="%s">%s</option>' % (str(s), str(s)), response.body)
for e in db.general_sites:
if details["environment_sampled"] == str(e):
self.assertIn('<option value="%s" selected>%s</option>' % (str(e), str(e)), response.body)
else:
self.assertIn('<option value="%s">%s</option>' % (str(e), str(e)), response.body)
for p in db.getHumanParticipants(l) + db.getAnimalParticipants(l):
if details["participant_name"] == str(p):
self.assertIn('<option value="%s" selected>%s</option>' % (str(p), str(p)), response.body)
else:
self.assertIn('<option value="%s" >%s</option>' % (str(p), str(p)), response.body)
def test_search_kits(self):
# obtain current test data from DB
ag_login_id = 'd8592c74-7cf9-2135-e040-8a80115d6401'
kits = db.get_kit_info_by_login(ag_login_id)
# check if ag_login_id is regain with supplied_kit_id
obs = db.search_kits(kits[0]['supplied_kit_id'])
self.assertEqual([ag_login_id], obs)
# check if kit_id is found by search
obs = db.search_kits('e1934dfe-8537-6dce-e040-8a80115d2da9')
self.assertEqual(['e1934ceb-6e92-c36a-e040-8a80115d2d64'], obs)
# check that a non existing kit is not found
obs = db.search_kits('990001124')
self.assertEqual([], obs)
def test_post_kit(self):
self.mock_login_admin()
search_term = 'tst_zpdIN'
response = self.post('/ag_search/', {'search_term': search_term})
self.assertEqual(response.code, 200)
for kit_id in db.search_kits(search_term):
for kit in db.get_kit_info_by_login(kit_id):
for field in kit:
if (field != 'ag_kit_id') and (field != 'ag_login_id'):
self.assertIn(str(kit[field]), response.body)
def test_post_kit(self):
self.mock_login_admin()
search_term = 'tst_zpdIN'
response = self.post('/ag_search/', {'search_term': search_term})
self.assertEqual(response.code, 200)
for kit_id in db.search_kits(search_term):
for kit in db.get_kit_info_by_login(kit_id):
for field in kit:
if (field != 'ag_kit_id') and (field != 'ag_login_id'):
self.assertIn(str(kit[field]), response.body)
def get(self):
barcode = self.get_argument('barcode', None)
if barcode is not None:
details = db.getAGBarcodeDetails(barcode)
ag_login_id = db.search_kits(details['ag_kit_id'])[0]
site_sampled = db.human_sites
environment_sampled = db.general_sites
participants = db.getHumanParticipants(ag_login_id) + \
db.getAnimalParticipants(ag_login_id)
self.render("ag_edit_barcode.html", response=None, barcode=barcode,
sites_sampled=site_sampled, details=details,
environments_sampled=environment_sampled,
participants=participants,
currentuser=self.current_user)
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 get(self):
barcode = self.get_argument('barcode', None)
if barcode is not None:
details = db.getAGBarcodeDetails(barcode)
ag_login_id = db.search_kits(details['ag_kit_id'])[0]
site_sampled = db.human_sites
environment_sampled = db.general_sites
participants = db.getHumanParticipants(ag_login_id) + \
db.getAnimalParticipants(ag_login_id)
self.render("ag_edit_barcode.html", response=None, barcode=barcode,
sites_sampled=site_sampled, details=details,
environments_sampled=environment_sampled,
participants=participants,
currentuser=self.current_user)
else:
self.set_status(400)
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)
