Merge pull request #860 from cmu-delphi/release/delphi-epidata-0.3.12

Release Delphi Epidata 0.3.12

Author: krivard

.bumpversion.cfg

@@ -1,5 +1,5 @@
 [bumpversion]
-current_version = 0.3.11
+current_version = 0.3.12
 commit = False
 tag = False
 

docs/Gemfile.lock

@@ -204,23 +204,23 @@ GEM
       rb-fsevent (~> 0.10, >= 0.10.3)
       rb-inotify (~> 0.9, >= 0.9.10)
     mercenary (0.3.6)
-    mini_portile2 (2.6.1)
+    mini_portile2 (2.8.0)
     minima (2.5.1)
       jekyll (>= 3.5, < 5.0)
       jekyll-feed (~> 0.9)
       jekyll-seo-tag (~> 2.1)
     minitest (5.14.4)
     multipart-post (2.1.1)
-    nokogiri (1.12.5)
-      mini_portile2 (~> 2.6.1)
+    nokogiri (1.13.3)
+      mini_portile2 (~> 2.8.0)
       racc (~> 1.4)
     octokit (4.20.0)
       faraday (>= 0.9)
       sawyer (~> 0.8.0, >= 0.5.3)
     pathutil (0.16.2)
       forwardable-extended (~> 2.6)
     public_suffix (4.0.6)
-    racc (1.5.2)
+    racc (1.6.0)
     rb-fsevent (0.10.4)
     rb-inotify (0.10.1)
       ffi (~> 1.0)

src/client/delphi_epidata.R

@@ -15,7 +15,7 @@ Epidata <- (function() {
   # API base url
   BASE_URL <- 'https://delphi.cmu.edu/epidata/api.php'
 
-  client_version <- '0.3.11'
+  client_version <- '0.3.12'
 
   # Helper function to cast values and/or ranges to strings
   .listitem <- function(value) {

src/client/delphi_epidata.js

@@ -22,7 +22,7 @@
   }
 })(this, function (exports, fetchImpl, jQuery) {
   const BASE_URL = "https://delphi.cmu.edu/epidata/";
-  const client_version = "0.3.11";
+  const client_version = "0.3.12";
 
   // Helper function to cast values and/or ranges to strings
   function _listitem(value) {

src/client/packaging/npm/package.json

@@ -2,7 +2,7 @@
   "name": "delphi_epidata",
   "description": "Delphi Epidata API Client",
   "authors": "Delphi Group",
-  "version": "0.3.11",
+  "version": "0.3.12",
   "license": "MIT",
   "homepage": "https://github.com/cmu-delphi/delphi-epidata",
   "bugs": {

src/client/packaging/pypi/delphi_epidata/__init__.py

@@ -1,4 +1,4 @@
 from .delphi_epidata import Epidata
 
 name = 'delphi_epidata'
-__version__ = '0.3.11'
+__version__ = '0.3.12'

src/client/packaging/pypi/setup.py

@@ -5,7 +5,7 @@
 
 setuptools.setup(
     name="delphi_epidata",
-    version="0.3.11",
+    version="0.3.12",
     author="David Farrow",
     author_email="[email protected]",
     description="A programmatic interface to Delphi's Epidata API.",

src/server/_config.py

@@ -5,7 +5,7 @@
 
 load_dotenv()
 
-VERSION = "0.3.11"
+VERSION = "0.3.12"
 
 MAX_RESULTS = int(10e6)
 MAX_COMPATIBILITY_RESULTS = int(3650)

src/server/endpoints/covidcast_utils/db_signals.csv

@@ -784,6 +784,18 @@ nchs-mortality,deaths_pneumonia_or_flu_or_covid_incidence_num,TRUE,deaths_pneumo
 National provisional death counts is based on death certificate data received and coded by the National Center for Health Statistics ([NCHS](https://www.cdc.gov/nchs/nvss/vsrr/COVID19/index.htm))",week,Week,Value,per100k,late,bad,FALSE,FALSE,FALSE,FALSE,FALSE,
 quidel-covid-ag,covid_ag_raw_pct_positive,FALSE,covid_ag_raw_pct_positive,FALSE,COVID-19 Antigen Tests: Percent Positive,TRUE,Percentage of antigen tests that were positive for COVID-19,"When a patient (whether at a doctor’s office, clinic, or hospital) has COVID-like symptoms, doctors may order an antigen test. An antigen test can detect parts of the virus that are present during an active infection. This is in contrast with antibody tests, which detect parts of the immune system that react to the virus, but which persist long after the infection has passed. For this signal, we compute the percentage of antigen tests performed that were positive for COVID-19.",day,Date,Percentage,percent,cases_testing,bad,FALSE,FALSE,FALSE,TRUE,TRUE,[Technical description](https://cmu-delphi.github.io/delphi-epidata/api/covidcast-signals/quidel.html#covid-19-tests)
 quidel-covid-ag,covid_ag_raw_pct_positive,TRUE,covid_ag_smoothed_pct_positive,FALSE,{base_name} (7-day average),TRUE,,,day,Date,Percentage,percent,cases_testing,bad,TRUE,FALSE,FALSE,TRUE,TRUE,
+quidel-covid-ag,covid_ag_raw_pct_positive_age_0_17,FALSE,covid_ag_raw_pct_positive_age_0_17,FALSE,"COVID-19 Antigen Tests: Percent Positive, Ages 0-17",TRUE,Percentage of antigen tests that were positive for COVID-19 among people ages 0-17,"When a patient (whether at a doctor’s office, clinic, or hospital) has COVID-like symptoms, doctors may order an antigen test. An antigen test can detect parts of the virus that are present during an active infection. This is in contrast with antibody tests, which detect parts of the immune system that react to the virus, but which persist long after the infection has passed. For this signal, we compute the percentage of antigen tests performed that were positive for COVID-19 among people ages 0-17",day,Date,Percentage,percent,cases_testing,bad,FALSE,FALSE,FALSE,TRUE,TRUE,[Technical description](https://cmu-delphi.github.io/delphi-epidata/api/covidcast-signals/quidel.html#covid-19-tests)
+quidel-covid-ag,covid_ag_raw_pct_positive_age_0_17,TRUE,covid_ag_smoothed_pct_positive_age_0_17,FALSE,{base_name} (Smoothed),TRUE,,"{base_description}, smoothed using a 7-day moving average and geographical pooling",day,Date,Percentage,percent,cases_testing,bad,TRUE,FALSE,FALSE,TRUE,TRUE,
+quidel-covid-ag,covid_ag_raw_pct_positive_age_0_4,FALSE,covid_ag_raw_pct_positive_age_0_4,FALSE,"COVID-19 Antigen Tests: Percent Positive, Ages 0-4",TRUE,Percentage of antigen tests that were positive for COVID-19 among people ages 0-4,"When a patient (whether at a doctor’s office, clinic, or hospital) has COVID-like symptoms, doctors may order an antigen test. An antigen test can detect parts of the virus that are present during an active infection. This is in contrast with antibody tests, which detect parts of the immune system that react to the virus, but which persist long after the infection has passed. For this signal, we compute the percentage of antigen tests performed that were positive for COVID-19 among people ages 0-4",day,Date,Percentage,percent,cases_testing,bad,FALSE,FALSE,FALSE,TRUE,TRUE,[Technical description](https://cmu-delphi.github.io/delphi-epidata/api/covidcast-signals/quidel.html#covid-19-tests)
+quidel-covid-ag,covid_ag_raw_pct_positive_age_0_4,TRUE,covid_ag_smoothed_pct_positive_age_0_4,FALSE,{base_name} (Smoothed),TRUE,,"{base_description}, smoothed using a 7-day moving average and geographical pooling",day,Date,Percentage,percent,cases_testing,bad,TRUE,FALSE,FALSE,TRUE,TRUE,
+quidel-covid-ag,covid_ag_raw_pct_positive_age_18_49,FALSE,covid_ag_raw_pct_positive_age_18_49,FALSE,"COVID-19 Antigen Tests: Percent Positive, Ages 18-49",TRUE,Percentage of antigen tests that were positive for COVID-19 among people ages 18-49,"When a patient (whether at a doctor’s office, clinic, or hospital) has COVID-like symptoms, doctors may order an antigen test. An antigen test can detect parts of the virus that are present during an active infection. This is in contrast with antibody tests, which detect parts of the immune system that react to the virus, but which persist long after the infection has passed. For this signal, we compute the percentage of antigen tests performed that were positive for COVID-19 among people ages 18-49",day,Date,Percentage,percent,cases_testing,bad,FALSE,FALSE,FALSE,TRUE,TRUE,[Technical description](https://cmu-delphi.github.io/delphi-epidata/api/covidcast-signals/quidel.html#covid-19-tests)
+quidel-covid-ag,covid_ag_raw_pct_positive_age_18_49,TRUE,covid_ag_smoothed_pct_positive_age_18_49,FALSE,{base_name} (Smoothed),TRUE,,"{base_description}, smoothed using a 7-day moving average and geographical pooling",day,Date,Percentage,percent,cases_testing,bad,TRUE,FALSE,FALSE,TRUE,TRUE,
+quidel-covid-ag,covid_ag_raw_pct_positive_age_5_17,FALSE,covid_ag_raw_pct_positive_age_5_17,FALSE,"COVID-19 Antigen Tests: Percent Positive, Ages 5-17",TRUE,Percentage of antigen tests that were positive for COVID-19 among people ages 5-17,"When a patient (whether at a doctor’s office, clinic, or hospital) has COVID-like symptoms, doctors may order an antigen test. An antigen test can detect parts of the virus that are present during an active infection. This is in contrast with antibody tests, which detect parts of the immune system that react to the virus, but which persist long after the infection has passed. For this signal, we compute the percentage of antigen tests performed that were positive for COVID-19 among people ages 5-17",day,Date,Percentage,percent,cases_testing,bad,FALSE,FALSE,FALSE,TRUE,TRUE,[Technical description](https://cmu-delphi.github.io/delphi-epidata/api/covidcast-signals/quidel.html#covid-19-tests)
+quidel-covid-ag,covid_ag_raw_pct_positive_age_5_17,TRUE,covid_ag_smoothed_pct_positive_age_5_17,FALSE,{base_name} (Smoothed),TRUE,,"{base_description}, smoothed using a 7-day moving average and geographical pooling",day,Date,Percentage,percent,cases_testing,bad,TRUE,FALSE,FALSE,TRUE,TRUE,
+quidel-covid-ag,covid_ag_raw_pct_positive_age_50_64,FALSE,covid_ag_raw_pct_positive_age_50_64,FALSE,"COVID-19 Antigen Tests: Percent Positive, Ages 50-64",TRUE,Percentage of antigen tests that were positive for COVID-19 among people ages 50-64,"When a patient (whether at a doctor’s office, clinic, or hospital) has COVID-like symptoms, doctors may order an antigen test. An antigen test can detect parts of the virus that are present during an active infection. This is in contrast with antibody tests, which detect parts of the immune system that react to the virus, but which persist long after the infection has passed. For this signal, we compute the percentage of antigen tests performed that were positive for COVID-19 among people ages 50-64",day,Date,Percentage,percent,cases_testing,bad,FALSE,FALSE,FALSE,TRUE,TRUE,[Technical description](https://cmu-delphi.github.io/delphi-epidata/api/covidcast-signals/quidel.html#covid-19-tests)
+quidel-covid-ag,covid_ag_raw_pct_positive_age_50_64,TRUE,covid_ag_smoothed_pct_positive_age_50_64,FALSE,{base_name} (Smoothed),TRUE,,"{base_description}, smoothed using a 7-day moving average and geographical pooling",day,Date,Percentage,percent,cases_testing,bad,TRUE,FALSE,FALSE,TRUE,TRUE,
+quidel-covid-ag,covid_ag_raw_pct_positive_age_65plus,FALSE,covid_ag_raw_pct_positive_age_65plus,FALSE,"COVID-19 Antigen Tests: Percent Positive, Ages 65+",TRUE,Percentage of antigen tests that were positive for COVID-19 among people age 65 and above,"When a patient (whether at a doctor’s office, clinic, or hospital) has COVID-like symptoms, doctors may order an antigen test. An antigen test can detect parts of the virus that are present during an active infection. This is in contrast with antibody tests, which detect parts of the immune system that react to the virus, but which persist long after the infection has passed. For this signal, we compute the percentage of antigen tests performed that were positive for COVID-19 among people ages 65 and above",day,Date,Percentage,percent,cases_testing,bad,FALSE,FALSE,FALSE,TRUE,TRUE,[Technical description](https://cmu-delphi.github.io/delphi-epidata/api/covidcast-signals/quidel.html#covid-19-tests)
+quidel-covid-ag,covid_ag_raw_pct_positive_age_65plus,TRUE,covid_ag_smoothed_pct_positive_age_65plus,FALSE,{base_name} (Smoothed),TRUE,,"{base_description}, smoothed using a 7-day moving average and geographical pooling",day,Date,Percentage,percent,cases_testing,bad,TRUE,FALSE,FALSE,TRUE,TRUE,
 quidel-flu,raw_pct_negative,FALSE,raw_pct_negative,FALSE,Flu Tests: Percent Negative,FALSE,"The percentage of flu tests that are negative, suggesting the patient's illness has another cause, possibly COVID-19 ","{short_description}.
 
 Discontinued May 19, 2020.",day,Date,Percentage,percent,late,bad,FALSE,FALSE,FALSE,TRUE,TRUE,https://cmu-delphi.github.io/delphi-epidata/api/covidcast-signals/quidel.html#flu-tests