def post(self):
form = cgi.FieldStorage()
chemical_name = form.getvalue('chemical_name')
# select_receptor = form.getvalue('select_receptor')
# bw_bird = form.getvalue('body_weight_of_bird')
# bw_mamm = form.getvalue('body_weight_of_mammal')
sol = form.getvalue('solubility')
ld50_a = form.getvalue('ld50_a')
ld50_m = form.getvalue('ld50_m')
aw_bird = form.getvalue('aw_bird')
# tw_bird = form.getvalue('body_weight_of_the_tested_bird')
aw_mamm = form.getvalue('aw_mamm')
# tw_mamm = form.getvalue('body_weight_of_the_tested_mammal')
mineau = form.getvalue('mineau_scaling_factor')
noael = form.getvalue('NOAEL')
noaec_d = form.getvalue('NOAEC_d')
noaec_q = form.getvalue('NOAEC_q')
noaec_o = form.getvalue('NOAEC_o')
# noaec_o2 = form.getvalue('NOAEC_o2')
Species_of_the_bird_NOAEC_CHOICES = form.getvalue('NOAEC_species')
bw_quail = form.getvalue('bw_quail')
bw_duck = form.getvalue('bw_duck')
bwb_other = form.getvalue('bwb_other')
bw_rat = form.getvalue('bw_rat')
bwm_other = form.getvalue('bwm_other')
b_species = form.getvalue('b_species')
m_species = form.getvalue('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)
text_file = open('sip/sip_description.txt','r')
x = text_file.read()
templatepath = os.path.dirname(__file__) + '/../templates/'
ChkCookie = self.request.cookies.get("ubercookie")
html = uber_lib.SkinChk(ChkCookie, "SIP Output")
html = html + template.render(templatepath + '02uberintroblock_wmodellinks.html', {'model':'sip','page':'output'})
html = html + template.render (templatepath + '03ubertext_links_left.html', {})
html = html + template.render(templatepath + '04uberoutput_start.html', {
'model':'sip',
'model_attributes':'SIP Output'})
html = html + sip_tables.timestamp(sip_obj)
html = html + sip_tables.table_all(sip_obj)
html = html + template.render(templatepath + 'export.html', {})
html = html + template.render(templatepath + '04uberoutput_end.html', {})
html = html + template.render(templatepath + '06uberfooter.html', {'links': ''})
rest_funcs.save_dic(html, sip_obj.__dict__, "sip", "single")
self.response.out.write(html)
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