From 0e5e9916a8aabbb4e0313e3edc06e32608d811f8 Mon Sep 17 00:00:00 2001
From: Benjamin Chu <benchu99@hotmail.com>
Date: Sun, 10 Dec 2023 23:38:59 -0800
Subject: [PATCH] fix CI

---
 .github/workflows/CI.yml            |  6 ++++--
 .github/workflows/documentation.yml | 33 +++++++++++++++++++++++++++++
 2 files changed, 37 insertions(+), 2 deletions(-)
 create mode 100644 .github/workflows/documentation.yml

diff --git a/.github/workflows/CI.yml b/.github/workflows/CI.yml
index c663c75d..3a8063ab 100644
--- a/.github/workflows/CI.yml
+++ b/.github/workflows/CI.yml
@@ -5,7 +5,7 @@ on:
   schedule:
     - cron: '0 2 * * *'  # Daily at 2 AM UTC (8 PM CST)
   push:
-    branches: [master]
+    branches: [main]
     tags: ["*"]
   pull_request:
 jobs:
@@ -77,7 +77,9 @@ jobs:
       - run: | # add unregistered packages first
           julia --project=docs -e '
             using Pkg
-            pkg"add https://github.com/biona001/GhostKnockoffGWAS.jl"'
+            Pkg.add(url="https://github.com/biona001/ghostbasil_jll.jl")
+            Pkg.add(url="https://github.com/biona001/Ghostbasil.jl")
+            Pkg.add(url="https://github.com/biona001/GhostKnockoffGWAS")'
       - run: |
           julia --project=docs -e '
             using Pkg
diff --git a/.github/workflows/documentation.yml b/.github/workflows/documentation.yml
new file mode 100644
index 00000000..088f95f0
--- /dev/null
+++ b/.github/workflows/documentation.yml
@@ -0,0 +1,33 @@
+name: Documentation
+
+on:
+  push:
+    branches:
+      - main # update to match your development branch (master, main, dev, trunk, ...)
+    tags: '*'
+  pull_request:
+
+jobs:
+  build:
+    permissions:
+      contents: write
+      statuses: write
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: julia-actions/setup-julia@v1
+        with:
+          version: '1.6'
+      - run: | # add unregistered packages first
+          julia --project=docs -e '
+            using Pkg
+            Pkg.add(url="https://github.com/biona001/ghostbasil_jll.jl")
+            Pkg.add(url="https://github.com/biona001/Ghostbasil.jl")
+            Pkg.add(url="https://github.com/biona001/GhostKnockoffGWAS")'
+      - name: Install dependencies
+        run: julia --project=docs/ -e 'using Pkg; Pkg.develop(PackageSpec(path=pwd())); Pkg.instantiate()'
+      - name: Build and deploy
+        env:
+          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} # If authenticating with GitHub Actions token
+          DOCUMENTER_KEY: ${{ secrets.DOCUMENTER_KEY }} # If authenticating with SSH deploy key
+        run: julia --project=docs/ docs/make.jl
\ No newline at end of file