def make_observation(self):
observation = Observation()
observation.add_feature(self.feature_names['x'], NumericFeatureValue(self.robot_location.x))
observation.add_feature(self.feature_names['y'], NumericFeatureValue(self.robot_location.y))
for dir in self.directions.keys():
observation.add_feature(self.feature_names[dir], NumericFeatureValue(self.distance_in_direction(self.directions[dir])))
return observation
def populate_observation_dict(self, obs_type, encounter, obs_dict, visit_uuid):
# create datetime object based on encounter time so we can easily compare them
date_time_temp = encounter.get('encounterDatetime').split('.')[0]
date_time = datetime.strptime(date_time_temp, '%Y-%m-%dT%H:%M:%S')
observations = encounter.get('obs')
# if the dictionary is empty just place the encounter info into it
# empty dictionaries evaluate to false
if not obs_dict:
for obs in observations:
obs_string, obs_value = obs.get('display').split(':')
# Creatinine readings require a baseline reading so the have to be handled seperately from everything else
if obs_string == 'Creatinine in Blood (mg/dL)':
obs_object = Creatinine('Labs', obs_string.strip(), obs_value, obs_value, date_time, visit_uuid)
else:
obs_object = Observation(obs_type, obs_string.strip(), obs_value.strip(), date_time)
obs_dict[obs_string.strip()] = obs_object
return obs_dict
else:
for obs in observations:
obs_string, obs_value = obs.get('display').split(':')
obs_string = obs_string.strip()
obs_value = obs_value.strip()
obs_object = Observation(obs_type, obs_string, obs_value, date_time)
if obs_string in obs_dict:
# if a second creatinine value is found under the same visit update the baseline
if obs_string == 'Creatinine in Blood (mg/dL)':
creat = obs_dict.get('Creatinine in Blood (mg/dL)')
if creat.visit_id == 0:
obs_dict[obs_string] = Creatinine('Labs', obs_string, obs_value, obs_value, date_time, visit_uuid)
if creat.visit_id == visit_uuid:
creat.update_baseline(obs_value)
obs_dict[obs_string] = creat
continue
# if its a blank entry set the object
if obs_dict.get(obs_string).obs_datetime == 0:
obs_dict[obs_string] = obs_object
# if data entry is older than what is currently in the dictionary continue
if obs_dict.get(obs_string).obs_datetime >= date_time:
continue
# if the data entry is newer update the dictionary
elif obs_dict.get(obs_string).obs_datetime < date_time:
obs_dict[obs_string] = obs_object
continue
# if observation is not found in the dict add it
else:
obs_dict[obs_string] = obs_object
return obs_dict
def canvas_left_click(event_data):
"""canvas_left_click event handler
action - the left click imposes a red line in the canvas which should
scale up to the actual resolution.
"""
global canvas, observations
size = 10
x = event_data._tk_event.x
y = event_data._tk_event.y
# attempt to remove the mark is NEAR to an existing mark
if attempt_remove_mark(x, y):
# just exit if this returns True
return None
# make a temporary mark
mark_id = canvas.oval(x - size, y, x + size, y + size, color="red")
canvas.show()
# ask user what species they saw
species = askstring("Species", "Species name")
if (species is None) or (species == ''):
# they hit cancel or blank species
canvas.delete(mark_id)
else:
# record as an observation!
observation = Observation(current_image, species, x, y)
observations.append(observation)
def reset_dicts(self):
self.vitals_observations = {'Temperature (C)': Observation('Vitals', 'Temperature (C)', 0, 0),
'Pulse': Observation('Vitals', 'Pulse', 0, 0),
'Respiratory rate': Observation('Vitals', 'Respiratory rate', 0, 0),
'Systolic blood pressure': Observation('Vitals', 'Systolic blood pressure', 0, 0),
'Diastolic blood pressure': Observation('Vitals', 'Diastolic blood pressure', 0, 0)}
self.lab_observations = {'Leukocytes (#/mL)': Observation('Labs', 'Leukocytes (#/mL)', 0, 0),
'Blasts per 100 Leukocytes (%)': Observation('Labs', 'Blasts per 100 Leukocytes (%)', 0, 0),
'Glucose in Blood (mg/dL)': Observation('Labs', 'Glucose in Blood (mg/dL)', 0, 0),
'Lactate in Blood (mmol/L)': Observation('Labs', 'Lactate in Blood (mmol/L)', 0, 0),
'Creatinine in Blood (mg/dL)': Creatinine('Labs', 'Creatinine in Blood (mg/dL)', 0, 0, 0, 0),
'Bilirubin Total (mg/dL)': Observation('Labs', 'Bilirubin Total (mg/dL)', 0, 0),
'Platelets (#/mL)': Observation('Labs', 'Platelets (#/mL)', 0, 0),
'Partial Thromboplastin Time (s)': Observation('Labs', 'Partial Thromboplastin Time (s)', 0, 0),
'Blood Cultures, Viruses': Observation('Labs', 'Blood Cultures, Viruses', 0, 0),
'Blood Cultures, Bacteria': Observation('Labs', 'Blood Cultures, Bacteria', 0, 0),
'Blood Cultures, Fungus': Observation('Labs', 'Blood Cultures, Fungus', 0, 0),
'Urinalysis': Observation('Labs', 'Urinalysis', 0, 0)}
def test_indeterminate_1(self):
app = RestApp()
app.load_config()
app.load_kv(filename=app.kv_file)
patient_id_and_name = '10000X - Brooke Lampe'
current_timestamp = datetime(2017, 8, 6, 15, 14, 52, 608206)
obs_timestamp = datetime(2017, 8, 6, 13, 14, 52, 608206)
diabetes_i = False
diabetes_ii = False
ESRD = False
temperature = Observation('Vitals', 'Temperature (C)', 37.5,
obs_timestamp)
pulse = Observation('Vitals', 'Pulse', 90, obs_timestamp)
respiratory_rate = Observation('Vitals', 'Respiratory rate', 20,
obs_timestamp)
systolic_blood_pressure = Observation('Vitals',
'Systolic blood pressure', 120,
obs_timestamp)
diastolic_blood_pressure = Observation('Vitals',
'Diastolic blood pressure', 80,
obs_timestamp)
leukocytes = Observation('Labs', 'Leukocytes (#/mL)', 10000,
obs_timestamp)
blasts_per_100_leukocytes = Observation(
'Labs', 'Blasts per 100 Leukocytes (%)', 8, obs_timestamp)
glucose = Observation('Labs', 'Glucose in Blood (mg/dL)', 120,
obs_timestamp)
lactate = Observation('Labs', 'Lactate in Blood (mmol/L)', 1,
obs_timestamp)
creatinine = Creatinine('Labs', 'Creatinine in Blood (mg/dL)', 0.75,
0.5, obs_timestamp, 0)
bilirubin_total = Observation('Labs', 'Bilirubin Total (mg/dL)', 12,
obs_timestamp)
platelets_timestamp = 0
partial_thromboplastin_time_timestamp = 0
bacteria_culture_timestamp = 0
fungus_culture_timestamp = 0
virus_culture_timestamp = 0
urinalysis_timestamp = 0
colony_stimulating_factors = False
heparin = False
recombinant_human_erythropoientins = False
app.determination(
patient_id_and_name, current_timestamp, diabetes_i, diabetes_ii,
ESRD, temperature, pulse, respiratory_rate,
systolic_blood_pressure, diastolic_blood_pressure, leukocytes,
blasts_per_100_leukocytes, glucose, lactate, creatinine,
bilirubin_total, platelets_timestamp,
partial_thromboplastin_time_timestamp, bacteria_culture_timestamp,
fungus_culture_timestamp, virus_culture_timestamp,
urinalysis_timestamp, colony_stimulating_factors, heparin,
recombinant_human_erythropoientins)
self.assertEqual(app.root.ids.determination_summary.text,
'Indeterminate')
self.assertEqual(app.SIRS_criteria[0], 0)
self.assertEqual(app.SIRS_criteria[1], 0)
self.assertEqual(app.SIRS_criteria[2], 0)
self.assertEqual(app.SIRS_criteria[3], 0)
self.assertEqual(app.SIRS_criteria[4], 0)
self.assertEqual(app.organ_criteria[0], 0)
self.assertEqual(app.organ_criteria[1], 0)
self.assertEqual(app.organ_criteria[2], 0)
self.assertEqual(app.organ_criteria[3], 0)