def filter_patients_dataframe(self,
limit_date,
start_date=None,
include_null_dates=False):
n_limit = limit_date - relativedelta(months=1)
n_start = start_date - relativedelta(months=1)
return super(PreviousActiveList, self).filter_patients_dataframe(
getLastDayOfPeriod(n_limit.month, n_limit.year),
start_date=getFirstDayOfPeriod(n_start.month, n_start.year),
include_null_dates=include_null_dates)
def filter_patients_dataframe(self,
limit_date,
start_date=None,
include_null_dates=False):
data = super(HadViralLoad12Months, self).filter_patients_dataframe(
limit_date,
start_date=start_date,
include_null_dates=include_null_dates)
patients = data[0]
last_cv = data[1]
p_start = start_date - relativedelta(months=12)
p_start = getFirstDayOfPeriod(p_start.month, p_start.year)
cv_12_months = last_cv[last_cv >= p_start]
return patients.loc[cv_12_months.index], cv_12_months
def filter_patients_dataframe(self,
limit_date,
start_date=None,
include_null_dates=False):
stopped_prev = ArvStopped(self.fuchia_database)
n_limit = limit_date - relativedelta(months=1)
n_start = start_date - relativedelta(months=1)
stopped_prev_patients = stopped_prev.get_filtered_patients_dataframe(
getLastDayOfPeriod(n_limit.month, n_limit.year),
start_date=getFirstDayOfPeriod(n_start.month, n_start.year),
include_null_dates=include_null_dates)
al = ActiveList(self.fuchia_database)
active_list = al.get_filtered_patients_dataframe(
limit_date,
start_date=start_date,
include_null_dates=include_null_dates)
idx = stopped_prev_patients.index.intersection(active_list.index)
return active_list.loc[idx], None
def filter_patients_dataframe(self,
limit_date,
start_date=None,
include_null_dates=False):
cv_12_months = HadViralLoad12Inf1000(self.fuchia_database)
cv_12_months_patients = cv_12_months.get_filtered_patients_dataframe(
limit_date,
start_date=start_date,
include_null_dates=include_null_dates)
p_limit = limit_date - relativedelta(months=12)
p_start = start_date - relativedelta(months=12)
p_limit = getLastDayOfPeriod(p_limit.month, p_limit.year)
p_start = getFirstDayOfPeriod(p_start.month, p_start.year)
arv_started = ArvStartedDuringPeriod(
self.fuchia_database).get_filtered_patients_dataframe(
p_limit,
start_date=p_start,
include_null_dates=include_null_dates)
idx = cv_12_months_patients.index.intersection(arv_started.index)
return arv_started.loc[idx], None
def filter_patients_dataframe(self,
limit_date,
start_date=None,
include_null_dates=False):
active_list = ActiveList(
self.fuchia_database).get_filtered_patients_dataframe(
limit_date,
start_date=start_date,
include_null_dates=include_null_dates)
p_limit = limit_date - relativedelta(months=self.retention_duration)
p_start = start_date - relativedelta(months=self.retention_duration)
p_limit = getLastDayOfPeriod(p_limit.month, p_limit.year)
p_start = getFirstDayOfPeriod(p_start.month, p_start.year)
arv_started = ArvStartedDuringPeriod(
self.fuchia_database).get_filtered_patients_dataframe(
p_limit,
start_date=p_start,
include_null_dates=include_null_dates)
intersection = active_list.index.intersection(arv_started.index)
return active_list.loc[intersection], None
def filter_patients_dataframe(self, limit_date, start_date=None,
include_null_dates=False):
lost_prev = LostPatients(self.fuchia_database)
arv_started = ArvStartedPatients(self.fuchia_database)
n_limit = limit_date - relativedelta(months=1)
n_start = start_date - relativedelta(months=1)
i = (lost_prev & arv_started)
prev_lost_patients = i.get_filtered_patients_dataframe(
getLastDayOfPeriod(n_limit.month, n_limit.year),
start_date=getFirstDayOfPeriod(n_start.month, n_start.year),
include_null_dates=include_null_dates
)
visits = self.filter_visits_by_category(
limit_date,
start_date=None,
include_null_dates=include_null_dates
)
c1 = (visits['visit_date'] >= start_date)
c2 = (visits['visit_date'] <= limit_date)
visits = visits[c1 & c2]
seen_id = pd.Index(visits['patient_id'].unique())
# Arv dead during the period must be re-included
arv_dead = ArvDeadPatientsDuringPeriod(self.fuchia_database)
dead = arv_dead.get_filtered_patients_dataframe(
limit_date,
start_date=start_date,
include_null_dates=include_null_dates
)
seen_id = seen_id.union(dead.index)
# Transferred during the period must be re-included
arv_trans = ArvTransferredPatientsDuringPeriod(self.fuchia_database)
trans = arv_trans.get_filtered_patients_dataframe(
limit_date,
start_date=start_date,
include_null_dates=include_null_dates
)
seen_id = seen_id.union(trans.index)
n_index = prev_lost_patients.index.intersection(seen_id)
return prev_lost_patients.loc[n_index], None
