Merge pull request #854 from cmu-delphi/release/v3.2.5

Release v3.2.5

Author: minhkhul

.github/workflows/blog.yaml

@@ -17,7 +17,7 @@ jobs:
       - uses: actions/checkout@v3
         with:
           fetch-depth: 3
-      - uses: mamba-org/provision-with-micromamba@v15
+      - uses: mamba-org/provision-with-micromamba@v16
         with:
           environment-file: environment.yml
           micromamba-version: latest
@@ -37,7 +37,7 @@ jobs:
         run: |
           Rscript ./dependencies.R
       - name: Restore Blogdown Cache
-        uses: actions/cache@v3.0.2
+        uses: actions/cache@v3.3.1
         with:
           path: |
             ./blogdown
@@ -46,6 +46,8 @@ jobs:
             ${{ runner.os }}-blogdown2-${{ hashFiles('environment.yml') }}-
             ${{ runner.os }}-blogdown2-
       - name: Build site
+        env:
+          API_KEY: ${{ secrets.DELPHI_GITHUB_ACTIONS_EPIDATA_API_KEY }}
         run: |
           npm run build:blog
       - uses: actions/upload-artifact@v3

.github/workflows/ci.yaml

@@ -14,7 +14,7 @@ jobs:
       - uses: actions/setup-node@v3
         with:
           node-version: 16
-      - uses: actions/cache@v3.0.2
+      - uses: actions/cache@v3.3.1
         with:
           path: ~/.npm
           key: ${{ runner.os }}-node3-${{ hashFiles('**/package-lock.json') }}

.github/workflows/create_release.yml

@@ -32,7 +32,7 @@ jobs:
           base: main
           title: Release ${{ steps.version.outputs.next_tag }}
           labels: chore
-          reviewers: krivard
-          # assignees:
+          # reviewers: 
+          assignees: melange396
           body: |
             Releasing ${{ steps.version.outputs.next_tag }}.

.github/workflows/dependabot-assignments.yml

@@ -0,0 +1,17 @@
+name: Dependabot auto-assign reviewer
+on: pull_request
+
+permissions:
+  pull-requests: write
+
+jobs:
+  dependabot:
+    runs-on: ubuntu-latest
+    env: 
+        GH_TOKEN: ${{ secrets.CMU_DELPHI_AUTOMATION_MACHINE_DEPENDABOT_PAT }}
+    if: ${{ github.actor == 'dependabot[bot]' }}
+    steps:
+      - name: Assign team to PR
+        run: gh pr edit "$PR_URL" --add-reviewer "cmu-delphi/code-reviewers"
+        env:
+          PR_URL: ${{github.event.pull_request.html_url}}

.github/workflows/release_main.yml

@@ -47,7 +47,7 @@ jobs:
         with:
           node-version: 16
       - name: Cache Node.js modules
-        uses: actions/cache@v3.0.2
+        uses: actions/cache@v3.3.1
         with:
           path: ~/.npm # npm cache files are stored in `~/.npm` on Linux/macOS
           key: ${{ runner.OS }}-node2-${{ hashFiles('**/package-lock.json') }}

content/about/publications/index.md

@@ -106,7 +106,7 @@ papers:
   - title: "A Proposal for Standardized Evaluation of Epidemiological Models"
     image: evaluation.jpg
     authors: Rosenfeld, Grefenstette, Burke
-    link: https://www.cs.cmu.edu/~roni/standardized-evaluation-of-epi-models-rev-09nov2012.pdf
+    link: https://kilthub.cmu.edu/articles/report/A_Proposal_for_Standardized_Evaluation_of_Epidemiological_Models/21708314
     journal: White paper
     year: 2012
 ---

content/blog/2020-08-26-fb-survey.Rmd

@@ -48,7 +48,7 @@ output:
 ---
 
 ```{r, echo=FALSE}
-options(covidcast.auth = "9328d11cfe46d") # Minh's key
+options(covidcast.auth = Sys.getenv("API_KEY"))
 ```
 
 Since April 2020, in collaboration with Facebook,

content/blog/2020-10-06-survey-wave-4.Rmd

@@ -31,7 +31,7 @@ output:
     toc: true
 ---
 ```{r, echo=FALSE}
-options(covidcast.auth = "9328d11cfe46d") # Minh's key
+options(covidcast.auth = Sys.getenv("API_KEY"))
 ```
 Beginning in early April 2020, the `r blogdown::shortcode_html("reflink", "/", "Delphi group")` has
 conducted a major survey to track COVID-19 across the United States. With the

content/blog/2020-10-14-dv-signal.Rmd

@@ -75,7 +75,7 @@ library(covidcast)
 library(dplyr)
 library(ggplot2)
 library(gridExtra)
-options(covidcast.auth = "9328d11cfe46d") # Minh's key
+options(covidcast.auth = Sys.getenv("API_KEY"))
 
 # Fetch DV % CLI signal and USAFacts confirmed case incidence proportion at
 # the state level

content/blog/2020-12-10-masks-public.Rmd

@@ -22,7 +22,7 @@ output:
 ---
 
 ```{r, echo=FALSE}
-options(covidcast.auth = "9328d11cfe46d") # Minh's key
+options(covidcast.auth = Sys.getenv("API_KEY"))
 ```
 
 As COVID cases and deaths continue to rise in the United States, we are

content/blog/2021-01-15-causal-effect-mobility.Rmd

@@ -28,7 +28,7 @@ output:
 ---
 
 ```{r, echo=FALSE}
-options(covidcast.auth = "9328d11cfe46d") # Minh's key
+options(covidcast.auth = Sys.getenv("API_KEY"))
 ```
 
 ```{r setup, include=FALSE}

content/blog/2021-01-22-holiday-surveys.Rmd

@@ -30,7 +30,7 @@ output:
     toc: true
 ---
 ```{r, echo=FALSE}
-options(covidcast.auth = "9328d11cfe46d") # Minh's key
+options(covidcast.auth = Sys.getenv("API_KEY"))
 ```
 With pandemic fatigue setting in across the United States after a long year
 filled with uncertainty, many felt the temptation to celebrate a “normal”

content/people/index.md

@@ -532,11 +532,11 @@ people:
   image: kathryn-mazaitis-500x500-min.jpg
   affiliation: CMU/MLD
   team:
-  - core
-  - highlight
+  - past
   - blog
+  note: Core member, March 2020-July 2023
   link: https://cs.cmu.edu/~krivard
-  description: leads Delphi's engineering team, and is a Principal Research Programmer in the Machine Learning Department at CMU.
+  description: previously led Delphi's engineering team, and was a Principal Research Programmer in the Machine Learning Department at CMU.
 - firstName: Daniel
   lastName: McDonald
   image: daniel-mcdonald-photo.jpeg
@@ -594,7 +594,8 @@ people:
   image: luke-neureiter.jpg
   affiliation: CMU/MLD
   team:
-  - core
+  - past
+  note: Core member, March 2022-June 2023
 - firstName: Quang
   lastName: Nguyen
   image: quang-nguyen.jpg
@@ -852,6 +853,7 @@ people:
   affiliation: CMU/Stat
   team:
   - core
+  - highlight
 - firstName: Dmytro
   lastName: Trotsko
   image: dmytro-trotsko.jpg