Merge pull request #1 from DevPsyLab/main

20260116 - MM update fork

Author: mmetz9983

.github/workflows/deploy_rmarkdown.yml

@@ -0,0 +1,67 @@
+on:
+    workflow_dispatch:
+    push:
+       branches:
+         - main
+
+name: Quarto Publish
+
+jobs:
+  build-deploy:
+    runs-on: ubuntu-latest
+    permissions:
+      contents: write
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@v4
+    
+      - name: Set up Quarto
+        uses: quarto-dev/quarto-actions/setup@v2
+
+      #- name: Setup Python and Jupyter
+      #  uses: actions/setup-python@v4
+      #  with:
+      #    python-version: '3.x' # Version range or exact version of a Python version to use, using SemVer's version range syntax
+      #- run: pip install jupyter
+      #- run: pip install -r requirements.txt
+    
+      - name: Install R
+        uses: r-lib/actions/setup-r@v2
+    
+      - name: Session info
+        run: Rscript -e 'sessionInfo()'
+    
+      - name: Setup pandoc
+        uses: r-lib/actions/setup-pandoc@v2 # update
+    
+      - name: Install libcurl on Linux
+        if: runner.os == 'Linux'
+        run: sudo apt-get update -y && sudo apt-get install -y libcurl4-openssl-dev
+    
+      - name: Install package dependencies
+        uses: r-lib/actions/setup-r-dependencies@v2 # update
+    
+      #- name: Install remote packages
+      #  run: |
+      #   Rscript -e "install.packages('rstan', repos = c('https://mc-stan.org/r-packages/', getOption('repos')))"
+      #  # Rscript -e 'remotes::install_github("DevPsyLab/petersenlab")'
+    
+      - name: Render and Publish
+        uses: quarto-dev/quarto-actions/publish@v2
+        with:
+          target: gh-pages
+        env:
+          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+
+      - name: List files in workspace
+        if: always()
+        run: |
+          ls -lh
+          find . -type f
+          
+      - name: Archive production artifacts
+        if: always() # ensures it runs even if previous steps fail
+        uses: actions/upload-artifact@v4 # update
+        with:
+          name: site
+          path: _site/

.github/workflows/publish.yml

@@ -95,3 +95,5 @@ rsconnect/
 rsconnect
 
 _site/
+
+/.quarto/

.gitignore

@@ -2,8 +2,11 @@ Package: placeholder
 Title: LabWiki
 Version: 1.0.0
 Imports:
+  quarto,
   rmarkdown,
   blogdown,
+  downlit,
+  xml2,
   remotes,
   petersenlab
 Remotes:

DESCRIPTION

@@ -1,7 +1,7 @@
 # Lab Wiki
 
 This is the code that creates the Wiki for the Developmental Psychopathology Lab.
-The Lab Wiki is located here: **https://devpsylab.github.io/LabWiki**
+The Lab Wiki is located here: **<https://devpsylab.github.io/LabWiki>**
 
 # License
 
@@ -12,6 +12,6 @@ This work is licensed under a
 
 [![CC BY 4.0][cc-by-image]][cc-by]
 
-[cc-by]: https://creativecommons.org/licenses/by/4.0/
-[cc-by-image]: https://i.creativecommons.org/l/by/4.0/88x31.png
-[cc-by-shield]: https://img.shields.io/badge/License-CC%20BY%204.0-lightgrey.svg
+[cc-by]: <https://creativecommons.org/licenses/by/4.0/>
+[cc-by-image]: <https://i.creativecommons.org/l/by/4.0/88x31.png>
+[cc-by-shield]: <https://img.shields.io/badge/License-CC%20BY%204.0-lightgrey.svg>

README.md

@@ -0,0 +1,122 @@
+project:
+  type: website
+
+website:
+  title: "Lab Wiki for the Developmental Psychopathology Lab"
+  repo-url: https://github.com/DevPsyLab/LabWiki
+  repo-actions: [edit, source, issue]
+  google-analytics: G-8JSDTYMH7P
+  navbar:
+    logo: images/labLogo.png
+    search: true
+    tools:
+      - icon: github
+        menu:
+          - text: "Source Code"
+            href: https://github.com/DevPsyLab/LabWiki
+          - text: "Report a Bug"
+            href: https://github.com/DevPsyLab/LabWiki/issues/new
+      - icon: twitter
+        href: https://twitter.com/devpsylab
+      - icon: facebook
+        href: https://www.facebook.com/DevPsyLab
+      - icon: instagram
+        href: https://www.instagram.com/devpsylab
+    left:
+      - href: index.qmd
+        text: Home
+      - text: "Lab Manual"
+        href: lab-manual.qmd
+      - text: "Expectations"
+        menu:
+        - text: Everyone
+          href: expectations-everyone.qmd
+        - text: Undergraduate Research Assistants
+          href: expectations-undergradRA.qmd
+        - text: SROP Students
+          href: expectations-SROP.qmd
+        - text: Graduate Students
+          href: expectations-gradStudent.qmd
+        #- text: Postdoctoral Scholars
+        #  href: expectations-postdoc.qmd
+        - text: Lab Coordinator
+          href: expectations-labCoordinator.qmd
+        - text: Lab Staff
+          href: expectations-labStaff.qmd
+      - text: "Documentation"
+        menu:
+        - text: Adobe
+          href: adobe.qmd
+        - text: Data Analysis Guides
+          href: https://devpsylab.github.io/DataAnalysis
+        - text: Honors Projects
+          href: honors.qmd
+        - text: Mediation and Moderation
+          href: mediationModeration.qmd
+        - text: Open Science
+          href: openScience.qmd
+        - text: Opportunities
+          href: opportunities.qmd
+        - text: REDCap
+          href: redcap-manual.qmd
+        - text: Qualtrics
+          href: qualtrics-manual.qmd
+        - text: Remote Participation
+          href: documentation-remote.qmd
+        - text: Social Media
+          href: social-media.qmd
+        - text: Studies
+          href: studies.qmd
+        - text: Video Editing
+          href: video-editing.qmd
+        - text: Visual Studio Code
+          href: vsCode.qmd
+        - text: Writing Guidelines
+          href: writing.qmd
+      - text: "Studies"
+        menu:
+        - text: Externalizing Spectrum Across the Lifespan
+          href: study-externalizingSpectrumAcrossLifespan.qmd
+        - text: School Readiness Study
+          href: study-schoolReadinessStudy.qmd
+      - text: "Prospective Applicants"
+        menu:
+        - text: Prospective Undergraduate Research Assistants
+          href: prospective-undergradRA.qmd
+        - text: Prospective Graduate Students
+          href: prospective-gradStudent.qmd
+      - about.qmd
+    right:
+    - text: "Lab Website"
+      href: https://developmental-psychopathology.lab.uiowa.edu
+
+format:
+  html:
+    highlight-style: a11y
+    theme: cosmo
+    css: ["styles.css", "includes/custom.css", "font/css/roboto.css"]
+    toc: true
+    toc-depth: 5
+    toc-title: Contents
+    toc-location: right
+    execute:
+      error: true
+      warning: false
+    code-link: true
+    number-sections: true
+    code-fold: show
+    df-print: paged
+    code-tools:
+      source: true
+      toggle: true
+    link-external-newwindow: true
+    #include-in-header:
+    #  - "includes/google_analytics.html"
+    include-after-body:
+      - "includes/footer.html"
+    license: CC BY
+    author-meta: "Isaac T. Petersen"
+    date-meta: today
+
+lightbox: 
+  match: auto