def sipOutputPage(request):
import sip_model
chemical_name = request.POST.get('chemical_name')
# select_receptor = request.POST.get('select_receptor')
# bw_bird = request.POST.get('body_weight_of_bird')
# bw_mamm = request.POST.get('body_weight_of_mammal')
sol = request.POST.get('solubility')
ld50_a = request.POST.get('ld50_a')
ld50_m = request.POST.get('ld50_m')
aw_bird = request.POST.get('aw_bird')
# tw_bird = request.POST.get('body_weight_of_the_tested_bird')
aw_mamm = request.POST.get('aw_mamm')
# tw_mamm = request.POST.get('body_weight_of_the_tested_mammal')
mineau = request.POST.get('mineau_scaling_factor')
noael = request.POST.get('NOAEL')
noaec_d = request.POST.get('NOAEC_d')
noaec_q = request.POST.get('NOAEC_q')
noaec_o = request.POST.get('NOAEC_o')
# noaec_o2 = request.POST.get('NOAEC_o2')
Species_of_the_bird_NOAEC_CHOICES = request.POST.get('NOAEC_species')
bw_quail = request.POST.get('bw_quail')
bw_duck = request.POST.get('bw_duck')
bwb_other = request.POST.get('bwb_other')
bw_rat = request.POST.get('bw_rat')
bwm_other = request.POST.get('bwm_other')
b_species = request.POST.get('b_species')
m_species = request.POST.get('m_species')
sip_obj = sip_model.sip(True,True,'single',chemical_name, b_species, m_species, bw_quail, bw_duck, bwb_other, bw_rat, bwm_other, sol, ld50_a, ld50_m, aw_bird, mineau, aw_mamm, noaec_d, noaec_q, noaec_o, Species_of_the_bird_NOAEC_CHOICES, noael)
return sip_obj
def runSIPModel(self, config_properties, results_dict):
if not results_dict:
results_dict = {}
# this is where properties are searched, converted as needed, and any available methods are called
logger.info(config_properties)
chemical_name = None
if "chemical_name" in config_properties:
chemical_name = config_properties["chemical_name"]
sol = None
if "solubility" in config_properties:
sol = config_properties["solubility"]
ld50_a = None
if "avian_ld50_water" in config_properties:
ld50_a = config_properties["avian_ld50_water"]
noaec = None
if "avian_NOAEC" in config_properties:
noaec = config_properties["avian_NOAEC"]
aw_bird = None
if "body_weight_of_the_assessed_bird" in config_properties:
aw_bird = config_properties["body_weight_of_the_assessed_bird"]
bw_quail = None
if "bw_quail" in config_properties:
bw_quail = config_properties["bw_quail"]
bw_duck = None
if "bw_duck" in config_properties:
bw_duck = config_properties["bw_duck"]
bwb_other = None
if "bwb_other" in config_properties:
bwb_other = config_properties["bwb_other"]
mineau = None
if "mineau" in config_properties:
mineau = config_properties["mineau"]
ld50_m = None
if "ld50_m" in config_properties:
ld50_m = config_properties["ld50_m"]
noael = None
if "noael" in config_properties:
noael = config_properties["noael"]
aw_mamm = None
if "aw_mamm" in config_properties:
aw_mamm = config_properties["aw_mamm"]
bw_rat = None
if "bw_rat" in config_properties:
bw_rat = config_properties["bw_rat"]
bwm_other = None
if "bwm_other" in config_properties:
bw_rat = config_properties["bwm_other"]
m_species = None
if "m_species" in config_properties:
m_species = config_properties["m_species"]
b_species = None
if "b_species" in config_properties:
b_species = config_properties["id_Species_of_the_tested_bird"]
noaec_d = None
if "noaec_d" in config_properties:
noaec_d = config_properties["noaec_d"]
noaec_q = None
if "noaec_q" in config_properties:
noaec_q = config_properties["noaec_q"]
noaec_o = None
if "noaec_o" in config_properties:
noaec_o = config_properties["noaec_o"]
sip_obj = sip_model.sip(
True,
True,
True,
chemical_name,
b_species,
m_species,
bw_quail,
bw_duck,
bwb_other,
bw_rat,
bwm_other,
sol,
ld50_a,
ld50_m,
aw_bird,
mineau,
aw_mamm,
noaec_d,
noaec_q,
noaec_o,
Species_of_the_bird_NOAEC_CHOICES,
noael,
)
results_dict["sip"] = vars(sip_obj)
return results_dict
testFailureMessage = "Test of function name: %s expected: %s != calculated: %s" % ("chronconm",self.sip_obj.chronconm_out,fun)
self.assertEqual(fun,self.chronconm_out,testFailureMessage)
def suite(TestCaseName, **kwargs):
suite = unittest.TestSuite()
set_globals(**kwargs)
suite.addTest(unittest.makeSuite(TestCaseName))
stream = StringIO()
runner = unittest.TextTestRunner(stream=stream, verbosity=2)
result = runner.run(suite)
stream.seek(0)
test_out=stream.read()
return test_out
sip_obj = sip_model.sip(True,True,'qaqc',chemical_name[0], b_species[0], m_species[0], bw_quail[0], bw_duck[0], bwb_other[0], bw_rat[0], bwm_other[0], sol[0], avian_ld50[0], mammalian_ld50[0], aw_bird[0], mineau[0], aw_mamm[0], noaec_d[0], noaec_q[0], noaec_o[0], Species_of_the_bird_NOAEC_CHOICES[0], noael[0])
sip_obj.set_unit_testing_variables()
sip_obj.chemical_name_expected = chemical_name[0]
sip_obj.dose_bird_out_expected = dose_bird_out[0]
sip_obj.dose_mamm_out_expected = dose_mamm_out[0]
sip_obj.at_bird_out_expected = at_bird_out[0]
sip_obj.at_mamm_out_expected = at_mamm_out[0]
sip_obj.det_out_expected = det_out[0]
sip_obj.act_out_expected = act_out[0]
sip_obj.acute_bird_out_expected = acute_bird_out[0]
sip_obj.acuconb_out_expected = acuconb_out[0]
sip_obj.acute_mamm_out_expected = acute_mamm_out[0]
sip_obj.acuconm_out_expected = acuconm_out[0]
sip_obj.chron_bird_out_expected = chron_bird_out[0]
sip_obj.chronconb_out_expected = chronconb_out[0]
def html_table(row_inp_all):
while True:
row_inp_temp_all = row_inp_all.get()
if row_inp_temp_all is None:
break
else:
row_inp = row_inp_temp_all[0]
iter = row_inp_temp_all[1]
logger.info("iteration: " + str(iter))
chemical_name.append(str(row_inp[0]))
b_species.append(float(row_inp[1]))
m_species.append(float(row_inp[2]))
bw_quail.append(float(row_inp[3]))
bw_duck.append(float(row_inp[4]))
bwb_other.append(float(row_inp[5]))
bw_rat.append(float(row_inp[6]))
bwm_other.append(float(row_inp[7]))
sol.append(float(row_inp[8]))
avian_ld50.append(float(row_inp[9]))
mammalian_ld50.append(float(row_inp[10]))
aw_bird.append(float(row_inp[11]))
mineau.append(float(row_inp[12]))
aw_mamm.append(float(row_inp[13]))
noaec_d.append(float(row_inp[14]))
noaec_q.append(float(row_inp[15]))
noaec_o.append(float(row_inp[16]))
noael.append(float(row_inp[17]))
Species_of_the_bird_NOAEC_CHOICES.append(str(row_inp[18]))
if Species_of_the_bird_NOAEC_CHOICES[iter] == '1':
noaec.append(float(row_inp[14]))
elif Species_of_the_bird_NOAEC_CHOICES[iter] == '2':
noaec.append(float(row_inp[15]))
elif Species_of_the_bird_NOAEC_CHOICES[iter] == '3':
noaec.append(float(row_inp[16]))
logger.info(chemical_name)
logger.info(b_species)
logger.info(m_species)
logger.info(bw_quail)
logger.info(bw_duck)
logger.info(bwb_other)
logger.info(bw_rat)
logger.info(bwm_other)
logger.info(sol)
logger.info(avian_ld50)
logger.info(mammalian_ld50)
logger.info(aw_bird)
logger.info(mineau)
logger.info(aw_mamm)
logger.info(noaec_d)
logger.info(noaec_q)
logger.info(noaec_o)
logger.info(noael)
logger.info(Species_of_the_bird_NOAEC_CHOICES)
sip_obj = sip_model.sip(True,True,'batch',chemical_name[iter], b_species[iter], m_species[iter], bw_quail[iter],
bw_duck[iter], bwb_other[iter], bw_rat[iter], bwm_other[iter], sol[iter], avian_ld50[iter],
mammalian_ld50[iter], aw_bird[iter], mineau[iter], aw_mamm[iter], noaec_d[iter], noaec_q[iter], noaec_o[iter], Species_of_the_bird_NOAEC_CHOICES[iter], noael[iter])
dose_bird_out.append(sip_obj.dose_bird_out)
dose_mamm_out.append(sip_obj.dose_mamm_out)
at_bird_out.append(sip_obj.at_bird_out)
at_mamm_out.append(sip_obj.at_mamm_out)
det_out.append(sip_obj.det_out)
act_out.append(sip_obj.act_out)
acute_bird_out.append(sip_obj.acute_bird_out)
acuconb_out.append(sip_obj.acuconb_out)
acute_mamm_out.append(sip_obj.acute_mamm_out)
acuconm_out.append(sip_obj.acuconm_out)
chron_bird_out.append(sip_obj.chron_bird_out)
chronconb_out.append(sip_obj.chronconb_out)
chron_mamm_out.append(sip_obj.chron_mamm_out)
chronconm_out.append(sip_obj.chronconm_out)
jid_all.append(sip_obj.jid)
sip_all.append(sip_obj)
if iter == 0:
jid_batch.append(sip_obj.jid)
batch_header = """
<div class="out_">
<br><H3>Batch Calculation of Iteration %s:</H3>
</div>
"""%(iter + 1)
out_html_temp = batch_header + sip_tables.table_all(sip_obj)
out_html_all[iter]=out_html_temp