Merge pull request #1392 from cmu-delphi/release/delphi-epidata-4.1.18

Release Delphi Epidata 4.1.18
cmu-delphi · Feb 20, 2024 · 5da30ca · 5da30ca
2 parents bb8f5d5 + 0c00284
commit 5da30ca
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Showing 13 changed files with 61 additions and 26 deletions.
diff --git a/.bumpversion.cfg b/.bumpversion.cfg
@@ -1,5 +1,5 @@
 [bumpversion]
-current_version = 4.1.17
+current_version = 4.1.18
 commit = False
 tag = False
 

diff --git a/.gitignore b/.gitignore
@@ -11,3 +11,35 @@ __pycache__/
 /node_modules
 .mypy_cache
 /missing_db_signals.csv
+
+
+
+##Added by Tina to avoid tracking R studio config files
+# History files
+.Rhistory
+.Rapp.history
+
+# Session Data files
+.RData
+.RDataTmp
+
+# User-specific files
+.Ruserdata
+
+# RStudio files
+.Rproj.user/
+
+# OAuth2 token, see https://github.com/hadley/httr/releases/tag/v0.3
+.httr-oauth
+
+# knitr and R markdown default cache directories
+*_cache/
+/cache/
+
+# R Environment Variables
+.Renviron
+
+# RStudio Connect folder
+rsconnect/
+
+*.Rproj
diff --git a/dev/local/setup.cfg b/dev/local/setup.cfg
@@ -1,6 +1,6 @@
 [metadata]
 name = Delphi Development
-version = 4.1.17
+version = 4.1.18
 
 [options]
 packages =

diff --git a/docs/Gemfile.lock b/docs/Gemfile.lock
@@ -205,23 +205,23 @@ GEM
       rb-fsevent (~> 0.10, >= 0.10.3)
       rb-inotify (~> 0.9, >= 0.9.10)
     mercenary (0.3.6)
-    mini_portile2 (2.8.1)
+    mini_portile2 (2.8.5)
     minima (2.5.1)
       jekyll (>= 3.5, < 5.0)
       jekyll-feed (~> 0.9)
       jekyll-seo-tag (~> 2.1)
     minitest (5.17.0)
     multipart-post (2.1.1)
-    nokogiri (1.14.3)
-      mini_portile2 (~> 2.8.0)
+    nokogiri (1.16.2)
+      mini_portile2 (~> 2.8.2)
       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 (1.6.2)
+    racc (1.7.3)
     rb-fsevent (0.10.4)
     rb-inotify (0.10.1)
       ffi (~> 1.0)

diff --git a/docs/api/covidcast-signals/fb-survey.md b/docs/api/covidcast-signals/fb-survey.md
@@ -1,6 +1,6 @@
 ---
 title: COVID-19 Trends and Impact Survey
-parent: Data Sources and Signals
+parent: Inactive Signals
 grand_parent: COVIDcast Main Endpoint
 ---
 

diff --git a/docs/symptom-survey/publications.md b/docs/symptom-survey/publications.md
@@ -26,6 +26,9 @@ Pandemic"](https://www.pnas.org/topic/548) in *PNAS*:
 
 Research publications using the survey data include:
 
+- R.R. Andridge (2024). [Using proxy pattern-mixture models to explain bias in
+  estimates of COVID-19 vaccine uptake from two large surveys](https://doi.org/10.1093/jrsssa/qnae005).
+  *Journal of the Royal Statistical Society Series A: Statistics in Society*.
 - H. Bui, S. Ekşioğlu, R. Proano, and S. N. Pinkley (2024). [An Analysis of
   COVID-19 Vaccine Hesitancy in the U.S.](https://doi.org/10.1080/24725854.2024.2301966).
   *IISE Transactions*.

diff --git a/src/client/delphi_epidata.R b/src/client/delphi_epidata.R
@@ -15,7 +15,7 @@ Epidata <- (function() {
   # API base url
   BASE_URL <- getOption('epidata.url', default = 'https://api.delphi.cmu.edu/epidata/')
 
-  client_version <- '4.1.17'
+  client_version <- '4.1.18'
 
   auth <- getOption("epidata.auth", default = NA)
 

diff --git a/src/client/delphi_epidata.js b/src/client/delphi_epidata.js
@@ -22,7 +22,7 @@
   }
 })(this, function (exports, fetchImpl, jQuery) {
   const BASE_URL = "https://api.delphi.cmu.edu/epidata/";
-  const client_version = "4.1.17";
+  const client_version = "4.1.18";
 
   // Helper function to cast values and/or ranges to strings
   function _listitem(value) {

diff --git a/src/client/packaging/npm/package.json b/src/client/packaging/npm/package.json
@@ -2,7 +2,7 @@
   "name": "delphi_epidata",
   "description": "Delphi Epidata API Client",
   "authors": "Delphi Group",
-  "version": "4.1.17",
+  "version": "4.1.18",
   "license": "MIT",
   "homepage": "https://github.com/cmu-delphi/delphi-epidata",
   "bugs": {

diff --git a/src/client/packaging/pypi/delphi_epidata/__init__.py b/src/client/packaging/pypi/delphi_epidata/__init__.py
@@ -1,4 +1,4 @@
 from .delphi_epidata import Epidata
 
 name = "delphi_epidata"
-__version__ = "4.1.17"
+__version__ = "4.1.18"
diff --git a/src/client/packaging/pypi/setup.py b/src/client/packaging/pypi/setup.py
@@ -5,7 +5,7 @@
 
 setuptools.setup(
     name="delphi_epidata",
-    version="4.1.17",
+    version="4.1.18",
     author="David Farrow",
     author_email="[email protected]",
     description="A programmatic interface to Delphi's Epidata API.",

diff --git a/src/server/_config.py b/src/server/_config.py
@@ -7,7 +7,7 @@
 
 load_dotenv()
 
-VERSION = "4.1.17"
+VERSION = "4.1.18"
 
 MAX_RESULTS = int(10e6)
 MAX_COMPATIBILITY_RESULTS = int(3650)

diff --git a/src/server/endpoints/covidcast_utils/db_signals.csv b/src/server/endpoints/covidcast_utils/db_signals.csv