Merge pull request #1651 from cmu-delphi/release/delphi-epidata-4.1.34

Release Delphi Epidata 4.1.34

Author: melange396

.bumpversion.cfg

@@ -1,5 +1,5 @@
 [bumpversion]
-current_version = 4.1.33
+current_version = 4.1.34
 commit = False
 tag = False
 

dev/local/setup.cfg

@@ -1,6 +1,6 @@
 [metadata]
 name = Delphi Development
-version = 4.1.33
+version = 4.1.34
 
 [options]
 packages =

docs/Gemfile.lock

@@ -214,7 +214,7 @@ GEM
       jekyll-seo-tag (~> 2.1)
     minitest (5.17.0)
     multipart-post (2.1.1)
-    nokogiri (1.18.4)
+    nokogiri (1.18.8)
       mini_portile2 (~> 2.8.2)
       racc (~> 1.4)
     octokit (4.20.0)

docs/api/covidcast-signals/nssp.md

@@ -42,8 +42,10 @@ As of May 2024, NSSP received data from 78% of US EDs.
 ## Estimation
 
 The percent visits signals are calculated as a fraction of visits at facilities reporting to NSSP, rather than all facilities in the area.
-`county`, `state` and `nation` level data is reported as-is from NSSP, without modification, while `hhs`, `hrr` and `msa` are estimated by Delphi.
-State and HSA-level values are calculated and published by NSSP; County level values are not published individually, but are approximations copied from the HSA the county is in (every county in an HSA will have identical values).
+NSSP publishes this data based on reporting facilities aggregated to the level of Health Service Areas (`HSA`s, which are clusters of adjacent counties).
+NSSP also publishes these percentages aggregated to `state` and `nation` levels.
+While NSSP also publishes what appears like `county`-level data, these values are actually inherited from the parent HSA, such that all counties in an HSA have identical values.
+Delphi publishes NSSP's reported values for all these geo-levels, and also calculates and publishes values for `HRR`s and `MSA`s (based on the approximated `county` values), as well as for `HHS` regions."
 
 ### Geographic weighting
 As the original data is a percentage and raw case counts are not available, `hrr`,`msa`, and `hhs` values are computed from county-level data using a weighted mean. Each county is assigned a weight equal to its population in the last census (2020). Unreported counties are implicitly treated as having a weight of 0 or a value equal to the group mean.

requirements.api.txt

@@ -9,7 +9,7 @@ pandas==1.2.3
 python-dotenv==0.15.0
 pyyaml
 redis==3.5.3
-requests==2.32.0
+requests==2.32.4
 scipy==1.10.0
 sentry-sdk[flask]
 SQLAlchemy==1.4.40

requirements.dev.txt

@@ -1,4 +1,4 @@
-aiohttp==3.9.4
+aiohttp==3.10.11
 black>=20.8b1
 covidcast==0.1.5
 delphi_utils

src/acquisition/fluview/fluview_update.py

@@ -131,8 +131,8 @@
 
 # sheet names
 ILINET_SHEET = "ILINet.csv"
-PHL_SHEET = "WHO_NREVSS_Public_Health_Labs.csv"
-CL_SHEET = "WHO_NREVSS_Clinical_Labs.csv"
+PHL_SHEET = "ICL_NREVSS_Public_Health_Labs.csv"
+CL_SHEET = "ICL_NREVSS_Clinical_Labs.csv"
 # table names
 CL_TABLE = "fluview_clinical"
 PHL_TABLE = "fluview_public"

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 <- '4.1.33'
+  client_version <- '4.1.34'
 
   auth <- getOption("epidata.auth", default = NA)
 

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 = "4.1.33";
+  const client_version = "4.1.34";
 
   // 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": "4.1.33",
+  "version": "4.1.34",
   "license": "MIT",
   "homepage": "https://github.com/cmu-delphi/delphi-epidata",
   "bugs": {