diff --git a/hhs_hosp/delphi_hhs/constants.py b/hhs_hosp/delphi_hhs/constants.py index 0dbc44d40..810c74eb7 100644 --- a/hhs_hosp/delphi_hhs/constants.py +++ b/hhs_hosp/delphi_hhs/constants.py @@ -5,12 +5,16 @@ SUM_CONF_SUSP = "sum_confirmed_suspected_admissions_covid_1d" CONFIRMED_PROP = "confirmed_admissions_covid_1d_prop" SUM_CONF_SUSP_PROP = "sum_confirmed_suspected_admissions_covid_1d_prop" +CONFIRMED_FLU = "confirmed_admissions_influenza_1d" +CONFIRMED_FLU_PROP = CONFIRMED_FLU+"_prop" SIGNALS = [ CONFIRMED, SUM_CONF_SUSP, CONFIRMED_PROP, - SUM_CONF_SUSP_PROP + SUM_CONF_SUSP_PROP, + CONFIRMED_FLU, + CONFIRMED_FLU_PROP ] GEOS = [ diff --git a/hhs_hosp/delphi_hhs/run.py b/hhs_hosp/delphi_hhs/run.py index 91c627b6c..5fc5c20d0 100644 --- a/hhs_hosp/delphi_hhs/run.py +++ b/hhs_hosp/delphi_hhs/run.py @@ -15,7 +15,7 @@ import numpy as np import pandas as pd -from .constants import SIGNALS, GEOS, SMOOTHERS, CONFIRMED, SUM_CONF_SUSP +from .constants import SIGNALS, GEOS, SMOOTHERS, CONFIRMED, SUM_CONF_SUSP, CONFIRMED_FLU def _date_to_int(d): """Return a date object as a yyyymmdd int.""" @@ -190,6 +190,13 @@ def make_signal(all_columns, sig): all_columns.previous_day_admission_pediatric_covid_confirmed + \ all_columns.previous_day_admission_pediatric_covid_suspected, }) + elif sig.startswith(CONFIRMED_FLU): + df = pd.DataFrame({ + "state": all_columns.state.apply(str.lower), + "timestamp":int_date_to_previous_day_datetime(all_columns.date), + "val": \ + all_columns.previous_day_admission_influenza_confirmed + }) else: raise Exception( "Bad programmer: signal '{sig}' in SIGNALS but not handled in make_signal" diff --git a/hhs_hosp/tests/test_response.json b/hhs_hosp/tests/test_response.json index f0db04ab5..cc13037ae 100644 --- a/hhs_hosp/tests/test_response.json +++ b/hhs_hosp/tests/test_response.json @@ -1 +1,1086 @@ -{"epidata": [{"state": "AK", "issue": 20210621, "date": 20210611, "critical_staffing_shortage_today_yes": 1, "critical_staffing_shortage_today_no": 23, "critical_staffing_shortage_today_not_reported": 0, "critical_staffing_shortage_anticipated_within_week_yes": 1, "critical_staffing_shortage_anticipated_within_week_no": 23, "critical_staffing_shortage_anticipated_within_week_not_reported": 0, "hospital_onset_covid": 0, "hospital_onset_covid_coverage": 24, "inpatient_beds": 1671, "inpatient_beds_coverage": 24, "inpatient_beds_used": 1034, "inpatient_beds_used_coverage": 24, "inpatient_beds_used_covid": 17, "inpatient_beds_used_covid_coverage": 24, "previous_day_admission_adult_covid_confirmed": 2, "previous_day_admission_adult_covid_confirmed_coverage": 24, "previous_day_admission_adult_covid_suspected": 0, "previous_day_admission_adult_covid_suspected_coverage": 24, "previous_day_admission_pediatric_covid_confirmed": 0, "previous_day_admission_pediatric_covid_confirmed_coverage": 24, "previous_day_admission_pediatric_covid_suspected": 0, "previous_day_admission_pediatric_covid_suspected_coverage": 24, "staffed_adult_icu_bed_occupancy": 91, "staffed_adult_icu_bed_occupancy_coverage": 24, "staffed_icu_adult_patients_confirmed_suspected_covid": 4, "staffed_icu_adult_patients_confirmed_suspected_covid_coverage": 24, "staffed_icu_adult_patients_confirmed_covid": 4, "staffed_icu_adult_patients_confirmed_covid_coverage": 24, "total_adult_patients_hosp_confirmed_suspected_covid": 17, "total_adult_patients_hosp_confirmed_suspected_covid_coverage": 24, "total_adult_patients_hosp_confirmed_covid": 17, "total_adult_patients_hosp_confirmed_covid_coverage": 24, "total_pediatric_patients_hosp_confirmed_suspected_covid": 0, "total_pediatric_patients_hosp_confirmed_suspected_covid_coverage": 24, "total_pediatric_patients_hosp_confirmed_covid": 0, "total_pediatric_patients_hosp_confirmed_covid_coverage": 24, "total_staffed_adult_icu_beds": 131, "total_staffed_adult_icu_beds_coverage": 24, "inpatient_beds_utilization_coverage": 24, "inpatient_beds_utilization_numerator": 1034, "inpatient_beds_utilization_denominator": 1671, "percent_of_inpatients_with_covid_coverage": 24, "percent_of_inpatients_with_covid_numerator": 17, "percent_of_inpatients_with_covid_denominator": 1034, "inpatient_bed_covid_utilization_coverage": 24, "inpatient_bed_covid_utilization_numerator": 17, "inpatient_bed_covid_utilization_denominator": 1671, "adult_icu_bed_covid_utilization_coverage": 24, "adult_icu_bed_covid_utilization_numerator": 4, "adult_icu_bed_covid_utilization_denominator": 131, "adult_icu_bed_utilization_coverage": 24, "adult_icu_bed_utilization_numerator": 91, "adult_icu_bed_utilization_denominator": 131, "inpatient_beds_utilization": 0.618791143028127, "percent_of_inpatients_with_covid": 0.016441005802708, "inpatient_bed_covid_utilization": 0.01017354877319, "adult_icu_bed_covid_utilization": 0.030534351145038, "adult_icu_bed_utilization": 0.694656488549618}, {"state": "AL", "issue": 20210621, "date": 20210611, "critical_staffing_shortage_today_yes": 26, "critical_staffing_shortage_today_no": 76, "critical_staffing_shortage_today_not_reported": 15, "critical_staffing_shortage_anticipated_within_week_yes": 28, "critical_staffing_shortage_anticipated_within_week_no": 75, "critical_staffing_shortage_anticipated_within_week_not_reported": 14, "hospital_onset_covid": 5, "hospital_onset_covid_coverage": 113, "inpatient_beds": 15488, "inpatient_beds_coverage": 117, "inpatient_beds_used": 11591, "inpatient_beds_used_coverage": 117, "inpatient_beds_used_covid": 280, "inpatient_beds_used_covid_coverage": 113, "previous_day_admission_adult_covid_confirmed": 32, "previous_day_admission_adult_covid_confirmed_coverage": 115, "previous_day_admission_adult_covid_suspected": 75, "previous_day_admission_adult_covid_suspected_coverage": 113, "previous_day_admission_pediatric_covid_confirmed": 0, "previous_day_admission_pediatric_covid_confirmed_coverage": 113, "previous_day_admission_pediatric_covid_suspected": 5, "previous_day_admission_pediatric_covid_suspected_coverage": 113, "staffed_adult_icu_bed_occupancy": 1289, "staffed_adult_icu_bed_occupancy_coverage": 117, "staffed_icu_adult_patients_confirmed_suspected_covid": 82, "staffed_icu_adult_patients_confirmed_suspected_covid_coverage": 113, "staffed_icu_adult_patients_confirmed_covid": 73, "staffed_icu_adult_patients_confirmed_covid_coverage": 115, "total_adult_patients_hosp_confirmed_suspected_covid": 270, "total_adult_patients_hosp_confirmed_suspected_covid_coverage": 113, "total_adult_patients_hosp_confirmed_covid": 211, "total_adult_patients_hosp_confirmed_covid_coverage": 115, "total_pediatric_patients_hosp_confirmed_suspected_covid": 10, "total_pediatric_patients_hosp_confirmed_suspected_covid_coverage": 113, "total_pediatric_patients_hosp_confirmed_covid": 4, "total_pediatric_patients_hosp_confirmed_covid_coverage": 113, "total_staffed_adult_icu_beds": 1644, "total_staffed_adult_icu_beds_coverage": 117, "inpatient_beds_utilization_coverage": 117, "inpatient_beds_utilization_numerator": 11591, "inpatient_beds_utilization_denominator": 15488, "percent_of_inpatients_with_covid_coverage": 113, "percent_of_inpatients_with_covid_numerator": 280, "percent_of_inpatients_with_covid_denominator": 11454, "inpatient_bed_covid_utilization_coverage": 113, "inpatient_bed_covid_utilization_numerator": 280, "inpatient_bed_covid_utilization_denominator": 15272, "adult_icu_bed_covid_utilization_coverage": 113, "adult_icu_bed_covid_utilization_numerator": 82, "adult_icu_bed_covid_utilization_denominator": 1606, "adult_icu_bed_utilization_coverage": 117, "adult_icu_bed_utilization_numerator": 1289, "adult_icu_bed_utilization_denominator": 1644, "inpatient_beds_utilization": 0.748385847107438, "percent_of_inpatients_with_covid": 0.024445608521041, "inpatient_bed_covid_utilization": 0.018334206390781, "adult_icu_bed_covid_utilization": 0.051058530510585, "adult_icu_bed_utilization": 0.784063260340633}, {"state": "AR", "issue": 20210621, "date": 20210611, "critical_staffing_shortage_today_yes": 13, "critical_staffing_shortage_today_no": 95, "critical_staffing_shortage_today_not_reported": 2, "critical_staffing_shortage_anticipated_within_week_yes": 16, "critical_staffing_shortage_anticipated_within_week_no": 92, "critical_staffing_shortage_anticipated_within_week_not_reported": 2, "hospital_onset_covid": 2, "hospital_onset_covid_coverage": 108, "inpatient_beds": 9402, "inpatient_beds_coverage": 110, "inpatient_beds_used": 6833, "inpatient_beds_used_coverage": 110, "inpatient_beds_used_covid": 209, "inpatient_beds_used_covid_coverage": 108, "previous_day_admission_adult_covid_confirmed": 35, "previous_day_admission_adult_covid_confirmed_coverage": 110, "previous_day_admission_adult_covid_suspected": 50, "previous_day_admission_adult_covid_suspected_coverage": 108, "previous_day_admission_pediatric_covid_confirmed": 1, "previous_day_admission_pediatric_covid_confirmed_coverage": 108, "previous_day_admission_pediatric_covid_suspected": 11, "previous_day_admission_pediatric_covid_suspected_coverage": 108, "staffed_adult_icu_bed_occupancy": 685, "staffed_adult_icu_bed_occupancy_coverage": 110, "staffed_icu_adult_patients_confirmed_suspected_covid": 88, "staffed_icu_adult_patients_confirmed_suspected_covid_coverage": 108, "staffed_icu_adult_patients_confirmed_covid": 77, "staffed_icu_adult_patients_confirmed_covid_coverage": 110, "total_adult_patients_hosp_confirmed_suspected_covid": 202, "total_adult_patients_hosp_confirmed_suspected_covid_coverage": 108, "total_adult_patients_hosp_confirmed_covid": 175, "total_adult_patients_hosp_confirmed_covid_coverage": 110, "total_pediatric_patients_hosp_confirmed_suspected_covid": 7, "total_pediatric_patients_hosp_confirmed_suspected_covid_coverage": 108, "total_pediatric_patients_hosp_confirmed_covid": 4, "total_pediatric_patients_hosp_confirmed_covid_coverage": 108, "total_staffed_adult_icu_beds": 1008, "total_staffed_adult_icu_beds_coverage": 110, "inpatient_beds_utilization_coverage": 110, "inpatient_beds_utilization_numerator": 6833, "inpatient_beds_utilization_denominator": 9402, "percent_of_inpatients_with_covid_coverage": 108, "percent_of_inpatients_with_covid_numerator": 209, "percent_of_inpatients_with_covid_denominator": 6814, "inpatient_bed_covid_utilization_coverage": 108, "inpatient_bed_covid_utilization_numerator": 209, "inpatient_bed_covid_utilization_denominator": 9366, "adult_icu_bed_covid_utilization_coverage": 108, "adult_icu_bed_covid_utilization_numerator": 88, "adult_icu_bed_covid_utilization_denominator": 997, "adult_icu_bed_utilization_coverage": 110, "adult_icu_bed_utilization_numerator": 685, "adult_icu_bed_utilization_denominator": 1008, "inpatient_beds_utilization": 0.726760263773665, "percent_of_inpatients_with_covid": 0.030672145582624, "inpatient_bed_covid_utilization": 0.022314755498612, "adult_icu_bed_covid_utilization": 0.088264794383149, "adult_icu_bed_utilization": 0.679563492063492}, {"state": "AZ", "issue": 20210621, "date": 20210611, "critical_staffing_shortage_today_yes": 23, "critical_staffing_shortage_today_no": 98, "critical_staffing_shortage_today_not_reported": 3, "critical_staffing_shortage_anticipated_within_week_yes": 26, "critical_staffing_shortage_anticipated_within_week_no": 95, "critical_staffing_shortage_anticipated_within_week_not_reported": 3, "hospital_onset_covid": 3, "hospital_onset_covid_coverage": 121, "inpatient_beds": 17170, "inpatient_beds_coverage": 124, "inpatient_beds_used": 12091, "inpatient_beds_used_coverage": 124, "inpatient_beds_used_covid": 501, "inpatient_beds_used_covid_coverage": 121, "previous_day_admission_adult_covid_confirmed": 44, "previous_day_admission_adult_covid_confirmed_coverage": 124, "previous_day_admission_adult_covid_suspected": 120, "previous_day_admission_adult_covid_suspected_coverage": 121, "previous_day_admission_pediatric_covid_confirmed": 5, "previous_day_admission_pediatric_covid_confirmed_coverage": 121, "previous_day_admission_pediatric_covid_suspected": 3, "previous_day_admission_pediatric_covid_suspected_coverage": 121, "staffed_adult_icu_bed_occupancy": 1099, "staffed_adult_icu_bed_occupancy_coverage": 124, "staffed_icu_adult_patients_confirmed_suspected_covid": 124, "staffed_icu_adult_patients_confirmed_suspected_covid_coverage": 121, "staffed_icu_adult_patients_confirmed_covid": 82, "staffed_icu_adult_patients_confirmed_covid_coverage": 124, "total_adult_patients_hosp_confirmed_suspected_covid": 495, "total_adult_patients_hosp_confirmed_suspected_covid_coverage": 121, "total_adult_patients_hosp_confirmed_covid": 299, "total_adult_patients_hosp_confirmed_covid_coverage": 124, "total_pediatric_patients_hosp_confirmed_suspected_covid": 6, "total_pediatric_patients_hosp_confirmed_suspected_covid_coverage": 121, "total_pediatric_patients_hosp_confirmed_covid": 6, "total_pediatric_patients_hosp_confirmed_covid_coverage": 121, "total_staffed_adult_icu_beds": 2227, "total_staffed_adult_icu_beds_coverage": 124, "inpatient_beds_utilization_coverage": 124, "inpatient_beds_utilization_numerator": 12091, "inpatient_beds_utilization_denominator": 17170, "percent_of_inpatients_with_covid_coverage": 121, "percent_of_inpatients_with_covid_numerator": 501, "percent_of_inpatients_with_covid_denominator": 11890, "inpatient_bed_covid_utilization_coverage": 121, "inpatient_bed_covid_utilization_numerator": 501, "inpatient_bed_covid_utilization_denominator": 16884, "adult_icu_bed_covid_utilization_coverage": 121, "adult_icu_bed_covid_utilization_numerator": 124, "adult_icu_bed_covid_utilization_denominator": 2161, "adult_icu_bed_utilization_coverage": 124, "adult_icu_bed_utilization_numerator": 1099, "adult_icu_bed_utilization_denominator": 2227, "inpatient_beds_utilization": 0.704193360512522, "percent_of_inpatients_with_covid": 0.042136248948696, "inpatient_bed_covid_utilization": 0.029673063255153, "adult_icu_bed_covid_utilization": 0.057380842202684, "adult_icu_bed_utilization": 0.493488998652896}, {"state": "CA", "issue": 20210621, "date": 20210611, "critical_staffing_shortage_today_yes": 51, "critical_staffing_shortage_today_no": 321, "critical_staffing_shortage_today_not_reported": 42, "critical_staffing_shortage_anticipated_within_week_yes": 68, "critical_staffing_shortage_anticipated_within_week_no": 304, "critical_staffing_shortage_anticipated_within_week_not_reported": 42, "hospital_onset_covid": 24, "hospital_onset_covid_coverage": 406, "inpatient_beds": 63467, "inpatient_beds_coverage": 414, "inpatient_beds_used": 48028, "inpatient_beds_used_coverage": 414, "inpatient_beds_used_covid": 1221, "inpatient_beds_used_covid_coverage": 405, "previous_day_admission_adult_covid_confirmed": 157, "previous_day_admission_adult_covid_confirmed_coverage": 414, "previous_day_admission_adult_covid_suspected": 317, "previous_day_admission_adult_covid_suspected_coverage": 406, "previous_day_admission_pediatric_covid_confirmed": 3, "previous_day_admission_pediatric_covid_confirmed_coverage": 405, "previous_day_admission_pediatric_covid_suspected": 8, "previous_day_admission_pediatric_covid_suspected_coverage": 405, "staffed_adult_icu_bed_occupancy": 4747, "staffed_adult_icu_bed_occupancy_coverage": 413, "staffed_icu_adult_patients_confirmed_suspected_covid": 262, "staffed_icu_adult_patients_confirmed_suspected_covid_coverage": 405, "staffed_icu_adult_patients_confirmed_covid": 239, "staffed_icu_adult_patients_confirmed_covid_coverage": 413, "total_adult_patients_hosp_confirmed_suspected_covid": 1189, "total_adult_patients_hosp_confirmed_suspected_covid_coverage": 405, "total_adult_patients_hosp_confirmed_covid": 957, "total_adult_patients_hosp_confirmed_covid_coverage": 413, "total_pediatric_patients_hosp_confirmed_suspected_covid": 32, "total_pediatric_patients_hosp_confirmed_suspected_covid_coverage": 405, "total_pediatric_patients_hosp_confirmed_covid": 23, "total_pediatric_patients_hosp_confirmed_covid_coverage": 405, "total_staffed_adult_icu_beds": 6961, "total_staffed_adult_icu_beds_coverage": 413, "inpatient_beds_utilization_coverage": 414, "inpatient_beds_utilization_numerator": 48028, "inpatient_beds_utilization_denominator": 63467, "percent_of_inpatients_with_covid_coverage": 405, "percent_of_inpatients_with_covid_numerator": 1221, "percent_of_inpatients_with_covid_denominator": 47435, "inpatient_bed_covid_utilization_coverage": 405, "inpatient_bed_covid_utilization_numerator": 1221, "inpatient_bed_covid_utilization_denominator": 62647, "adult_icu_bed_covid_utilization_coverage": 405, "adult_icu_bed_covid_utilization_numerator": 262, "adult_icu_bed_covid_utilization_denominator": 6791, "adult_icu_bed_utilization_coverage": 413, "adult_icu_bed_utilization_numerator": 4747, "adult_icu_bed_utilization_denominator": 6961, "inpatient_beds_utilization": 0.756739723005656, "percent_of_inpatients_with_covid": 0.025740486982186, "inpatient_bed_covid_utilization": 0.019490159145689, "adult_icu_bed_covid_utilization": 0.038580474156972, "adult_icu_bed_utilization": 0.68194224967677}, {"state": "CO", "issue": 20210621, "date": 20210611, "critical_staffing_shortage_today_yes": 7, "critical_staffing_shortage_today_no": 86, "critical_staffing_shortage_today_not_reported": 13, "critical_staffing_shortage_anticipated_within_week_yes": 10, "critical_staffing_shortage_anticipated_within_week_no": 83, "critical_staffing_shortage_anticipated_within_week_not_reported": 13, "hospital_onset_covid": 4, "hospital_onset_covid_coverage": 104, "inpatient_beds": 11654, "inpatient_beds_coverage": 106, "inpatient_beds_used": 8076, "inpatient_beds_used_coverage": 106, "inpatient_beds_used_covid": 434, "inpatient_beds_used_covid_coverage": 104, "previous_day_admission_adult_covid_confirmed": 56, "previous_day_admission_adult_covid_confirmed_coverage": 106, "previous_day_admission_adult_covid_suspected": 56, "previous_day_admission_adult_covid_suspected_coverage": 104, "previous_day_admission_pediatric_covid_confirmed": 0, "previous_day_admission_pediatric_covid_confirmed_coverage": 104, "previous_day_admission_pediatric_covid_suspected": 26, "previous_day_admission_pediatric_covid_suspected_coverage": 104, "staffed_adult_icu_bed_occupancy": 905, "staffed_adult_icu_bed_occupancy_coverage": 106, "staffed_icu_adult_patients_confirmed_suspected_covid": 143, "staffed_icu_adult_patients_confirmed_suspected_covid_coverage": 104, "staffed_icu_adult_patients_confirmed_covid": 139, "staffed_icu_adult_patients_confirmed_covid_coverage": 106, "total_adult_patients_hosp_confirmed_suspected_covid": 409, "total_adult_patients_hosp_confirmed_suspected_covid_coverage": 104, "total_adult_patients_hosp_confirmed_covid": 353, "total_adult_patients_hosp_confirmed_covid_coverage": 106, "total_pediatric_patients_hosp_confirmed_suspected_covid": 25, "total_pediatric_patients_hosp_confirmed_suspected_covid_coverage": 104, "total_pediatric_patients_hosp_confirmed_covid": 1, "total_pediatric_patients_hosp_confirmed_covid_coverage": 104, "total_staffed_adult_icu_beds": 1299, "total_staffed_adult_icu_beds_coverage": 106, "inpatient_beds_utilization_coverage": 106, "inpatient_beds_utilization_numerator": 8076, "inpatient_beds_utilization_denominator": 11654, "percent_of_inpatients_with_covid_coverage": 104, "percent_of_inpatients_with_covid_numerator": 434, "percent_of_inpatients_with_covid_denominator": 8002, "inpatient_bed_covid_utilization_coverage": 104, "inpatient_bed_covid_utilization_numerator": 434, "inpatient_bed_covid_utilization_denominator": 11547, "adult_icu_bed_covid_utilization_coverage": 104, "adult_icu_bed_covid_utilization_numerator": 143, "adult_icu_bed_covid_utilization_denominator": 1266, "adult_icu_bed_utilization_coverage": 106, "adult_icu_bed_utilization_numerator": 905, "adult_icu_bed_utilization_denominator": 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"percent_of_inpatients_with_covid_numerator": 2758, + "percent_of_inpatients_with_covid_denominator": 25312, + "inpatient_bed_covid_utilization_coverage": 222, + "inpatient_bed_covid_utilization_numerator": 2758, + "inpatient_bed_covid_utilization_denominator": 30432, + "adult_icu_bed_covid_utilization_coverage": 222, + "adult_icu_bed_covid_utilization_numerator": 624, + "adult_icu_bed_covid_utilization_denominator": 3521, + "adult_icu_bed_utilization_coverage": 228, + "adult_icu_bed_utilization_numerator": 2868, + "adult_icu_bed_utilization_denominator": 3624, + "deaths_covid": 28, + "deaths_covid_coverage": 222, + "icu_patients_confirmed_influenza": 2, + "icu_patients_confirmed_influenza_coverage": 214, + "on_hand_supply_therapeutic_a_casirivimab_imdevimab_courses": 4135, + "on_hand_supply_therapeutic_b_bamlanivimab_courses": 4745, + "on_hand_supply_therapeutic_c_bamlanivimab_etesevimab_courses": 3767, + "previous_day_admission_adult_covid_confirmed_18_19": 0, + 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"total_patients_hospitalized_confirmed_influenza_covid": null, + "total_patients_hospitalized_confirmed_influenza_covid_coverage": null, + "inpatient_beds_utilization": 0.828604817243394, + "percent_of_inpatients_with_covid": 0.10896017699115, + "inpatient_bed_covid_utilization": 0.090628286014721, + "adult_icu_bed_covid_utilization": 0.17722238000568, + "adult_icu_bed_utilization": 0.791390728476821 + }, + { + "state": "PA", + "geocoded_state": null, + "issue": 20211025, + "date": 20210919, + "critical_staffing_shortage_today_yes": 28, + "critical_staffing_shortage_today_no": 194, + "critical_staffing_shortage_today_not_reported": 6, + "critical_staffing_shortage_anticipated_within_week_yes": 35, + "critical_staffing_shortage_anticipated_within_week_no": 187, + "critical_staffing_shortage_anticipated_within_week_not_reported": 6, + "hospital_onset_covid": 19, + "hospital_onset_covid_coverage": 222, + "inpatient_beds": 30820, + "inpatient_beds_coverage": 228, + "inpatient_beds_used": 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"total_adult_patients_hosp_confirmed_suspected_covid": 2693, + "total_adult_patients_hosp_confirmed_suspected_covid_coverage": 222, + "total_adult_patients_hosp_confirmed_covid": 2351, + "total_adult_patients_hosp_confirmed_covid_coverage": 228, + "total_pediatric_patients_hosp_confirmed_suspected_covid": 82, + "total_pediatric_patients_hosp_confirmed_suspected_covid_coverage": 222, + "total_pediatric_patients_hosp_confirmed_covid": 47, + "total_pediatric_patients_hosp_confirmed_covid_coverage": 222, + "total_staffed_adult_icu_beds": 3504, + "total_staffed_adult_icu_beds_coverage": 228, + "inpatient_beds_utilization_coverage": 228, + "inpatient_beds_utilization_numerator": 24956, + "inpatient_beds_utilization_denominator": 30820, + "percent_of_inpatients_with_covid_coverage": 222, + "percent_of_inpatients_with_covid_numerator": 2775, + "percent_of_inpatients_with_covid_denominator": 24757, + "inpatient_bed_covid_utilization_coverage": 222, + "inpatient_bed_covid_utilization_numerator": 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"previous_day_admission_adult_covid_confirmed_30_39": 23, + "previous_day_admission_adult_covid_confirmed_30_39_coverage": 222, + "previous_day_admission_adult_covid_confirmed_40_49": 28, + "previous_day_admission_adult_covid_confirmed_40_49_coverage": 223, + "previous_day_admission_adult_covid_confirmed_50_59": 48, + "previous_day_admission_adult_covid_confirmed_50_59_coverage": 224, + "previous_day_admission_adult_covid_confirmed_60_69": 43, + "previous_day_admission_adult_covid_confirmed_60_69_coverage": 223, + "previous_day_admission_adult_covid_confirmed_70_79": 41, + "previous_day_admission_adult_covid_confirmed_70_79_coverage": 223, + "previous_day_admission_adult_covid_confirmed_80plus": 42, + "previous_day_admission_adult_covid_confirmed_80plus_coverage": 224, + "previous_day_admission_adult_covid_confirmed_unknown": 15, + "previous_day_admission_adult_covid_confirmed_unknown_coverage": 221, + "previous_day_admission_adult_covid_suspected_18_19": 3, + "previous_day_admission_adult_covid_suspected_18_19_coverage": 218, + "previous_day_admission_adult_covid_suspected_20_29": 28, + "previous_day_admission_adult_covid_suspected_20_29_coverage": 217, + "previous_day_admission_adult_covid_suspected_30_39": 36, + "previous_day_admission_adult_covid_suspected_30_39_coverage": 217, + "previous_day_admission_adult_covid_suspected_40_49": 38, + "previous_day_admission_adult_covid_suspected_40_49_coverage": 217, + "previous_day_admission_adult_covid_suspected_50_59": 57, + "previous_day_admission_adult_covid_suspected_50_59_coverage": 218, + "previous_day_admission_adult_covid_suspected_60_69": 75, + "previous_day_admission_adult_covid_suspected_60_69_coverage": 217, + "previous_day_admission_adult_covid_suspected_70_79": 73, + "previous_day_admission_adult_covid_suspected_70_79_coverage": 218, + "previous_day_admission_adult_covid_suspected_80plus": 62, + "previous_day_admission_adult_covid_suspected_80plus_coverage": 217, + "previous_day_admission_adult_covid_suspected_unknown": 10, + "previous_day_admission_adult_covid_suspected_unknown_coverage": 214, + "previous_day_admission_influenza_confirmed": 3, + "previous_day_admission_influenza_confirmed_coverage": 216, + "previous_day_deaths_covid_and_influenza": 0, + "previous_day_deaths_covid_and_influenza_coverage": 216, + "previous_day_deaths_influenza": 0, + "previous_day_deaths_influenza_coverage": 216, + "previous_week_therapeutic_a_casirivimab_imdevimab_courses_used": 1168, + "previous_week_therapeutic_b_bamlanivimab_courses_used": 1, + "previous_week_therapeutic_c_bamlanivimab_etesevimab_courses_used": 104, + "total_patients_hospitalized_confirmed_influenza": 17, + "total_patients_hospitalized_confirmed_influenza_coverage": 216, + "total_patients_hospitalized_confirmed_influenza_covid": null, + "total_patients_hospitalized_confirmed_influenza_covid_coverage": null, + "inpatient_beds_utilization": 0.809733939000649, + "percent_of_inpatients_with_covid": 0.112089510037565, + "inpatient_bed_covid_utilization": 0.091133004926108, + "adult_icu_bed_covid_utilization": 0.187352941176471, + "adult_icu_bed_utilization": 0.787671232876712 + } + ], + "result": 1, + "message": "success" +} diff --git a/hhs_hosp/tests/test_run.py b/hhs_hosp/tests/test_run.py index ef9890f98..fc393e336 100644 --- a/hhs_hosp/tests/test_run.py +++ b/hhs_hosp/tests/test_run.py @@ -6,7 +6,8 @@ from delphi_hhs.run import _date_to_int, int_date_to_previous_day_datetime, generate_date_ranges, \ make_signal, make_geo, run_module, pop_proportion -from delphi_hhs.constants import CONFIRMED, SUM_CONF_SUSP, SMOOTHERS, GEOS, SIGNALS, CONFIRMED_PROP, SUM_CONF_SUSP_PROP +from delphi_hhs.constants import SMOOTHERS, GEOS, SIGNALS, \ + CONFIRMED, SUM_CONF_SUSP, CONFIRMED_FLU, CONFIRMED_PROP, SUM_CONF_SUSP_PROP, CONFIRMED_FLU_PROP from delphi_utils.geomap import GeoMapper from freezegun import freeze_time import numpy as np @@ -57,7 +58,8 @@ def test_make_signal(): 'previous_day_admission_adult_covid_confirmed': [1], 'previous_day_admission_adult_covid_suspected': [2], 'previous_day_admission_pediatric_covid_confirmed': [4], - 'previous_day_admission_pediatric_covid_suspected': [8] + 'previous_day_admission_pediatric_covid_suspected': [8], + 'previous_day_admission_influenza_confirmed': [16] }) expected_confirmed = pd.DataFrame({ @@ -76,6 +78,14 @@ def test_make_signal(): pd.testing.assert_frame_equal(expected_sum, make_signal(data, SUM_CONF_SUSP)) pd.testing.assert_frame_equal(expected_sum, make_signal(data, SUM_CONF_SUSP_PROP)) + expected_flu = pd.DataFrame({ + 'state': ['na'], + 'timestamp': [datetime(year=2020, month=1, day=1)], + 'val': [16.], + }) + pd.testing.assert_frame_equal(expected_flu, make_signal(data, CONFIRMED_FLU)) + pd.testing.assert_frame_equal(expected_flu, make_signal(data, CONFIRMED_FLU_PROP)) + with pytest.raises(Exception): make_signal(data, "zig") @@ -184,7 +194,8 @@ def test_ignore_last_range_no_results(mock_covid_hosp, mock_export): "previous_day_admission_adult_covid_confirmed": [0], "previous_day_admission_adult_covid_suspected": [0], "previous_day_admission_pediatric_covid_confirmed": [0], - "previous_day_admission_pediatric_covid_suspected": [0] + "previous_day_admission_pediatric_covid_suspected": [0], + "previous_day_admission_influenza_confirmed": [0] } }, {"result": -2, "message": "no results"}