Merge branch 'main' into multi-plants

Author: VEZY

.github/workflows/Benchmarks.yml

@@ -1,13 +1,14 @@
 name: Benchmarks
 on:
   pull_request_target:
-    branches: [main]
+    branches: [ main ]
   workflow_dispatch:
 permissions:
   pull-requests: write
 jobs:
   bench:
-    name: Julia ${{ matrix.version }} - ${{ matrix.os }} - ${{ matrix.arch }} - ${{ github.event_name }}
+    name: Julia ${{ matrix.version }} - ${{ matrix.os }} - ${{ matrix.arch }} - ${{
+      github.event_name }}
     runs-on: ${{ matrix.os }}
     timeout-minutes: 60
     strategy:
@@ -24,3 +25,4 @@ jobs:
         with:
           julia-version: ${{ matrix.version }}
           bench-on: ${{ github.event.pull_request.head.sha }}
+          extra-pkgs: https://github.com/PalmStudio/XPalm.jl,https://github.com/VEZY/PlantBiophysics.jl

.github/workflows/CI.yml

@@ -13,10 +13,11 @@ concurrency:
   cancel-in-progress: ${{ startsWith(github.ref, 'refs/pull/') }}
 jobs:
   test:
-    name: Julia ${{ matrix.version }} - ${{ matrix.os }} - ${{ matrix.arch }} - ${{ github.event_name }}
+    name: Julia ${{ matrix.version }} - ${{ matrix.os }} - ${{ github.event_name }}
     runs-on: ${{ matrix.os }}
     timeout-minutes: 60
-    permissions: # needed to allow julia-actions/cache to proactively delete old caches that it has created
+    permissions:
+      # needed to allow julia-actions/cache to proactively delete old caches that it has created
       actions: write
       contents: read
     strategy:
@@ -29,21 +30,18 @@ jobs:
           - ubuntu-latest
           - macOS-latest
           - windows-latest
-        arch:
-          - x64
     steps:
       - uses: actions/checkout@v6
-      - uses: julia-actions/setup-julia@v2
+      - uses: julia-actions/setup-julia@v3
         with:
           version: ${{ matrix.version }}
-          arch: ${{ matrix.arch }}
-      - uses: julia-actions/cache@v2
+      - uses: julia-actions/cache@v3
       - uses: julia-actions/julia-buildpkg@v1
       - uses: julia-actions/julia-runtest@v1
         env:
           JULIA_NUM_THREADS: 4
       - uses: julia-actions/julia-processcoverage@v1
-      - uses: codecov/codecov-action@v5
+      - uses: codecov/codecov-action@v6
         with:
           files: lcov.info
   docs:
@@ -55,10 +53,10 @@ jobs:
       statuses: write
     steps:
       - uses: actions/checkout@v6
-      - uses: julia-actions/setup-julia@v2
+      - uses: julia-actions/setup-julia@v3
         with:
           version: "1"
-      - uses: julia-actions/cache@v2
+      - uses: julia-actions/cache@v3
       - name: Configure doc environment
         shell: julia --project=docs --color=yes {0}
         run: |

.github/workflows/Integration.yml

@@ -13,10 +13,11 @@ concurrency:
   cancel-in-progress: ${{ startsWith(github.ref, 'refs/pull/') }}
 jobs:
   test:
-    name: Julia ${{ matrix.version }} - ${{ matrix.os }} - ${{ matrix.arch }} - ${{ github.event_name }}
+    name: Julia ${{ matrix.version }} - ${{ matrix.os }} - ${{ github.event_name }}
     runs-on: ${{ matrix.os }}
     timeout-minutes: 60
-    permissions: # needed to allow julia-actions/cache to proactively delete old caches that it has created
+    permissions:
+      # needed to allow julia-actions/cache to proactively delete old caches that it has created
       actions: write
       contents: read
     strategy:
@@ -26,22 +27,14 @@ jobs:
           - "1"
         os:
           - ubuntu-latest
-        arch:
-          - x64
         package:
           - { user: PalmStudio, repo: XPalm.jl, branch: main, default: main }
-          - {
-              user: VEZY,
-              repo: PlantBioPhysics.jl,
-              branch: master,
-              default: master,
-            }
+          - { user: VEZY, repo: PlantBioPhysics.jl, branch: master, default: master }
     steps:
       - uses: actions/checkout@v6
-      - uses: julia-actions/setup-julia@v2
+      - uses: julia-actions/setup-julia@v3
         with:
           version: ${{ matrix.version }}
-          arch: ${{ matrix.arch }}
       - uses: julia-actions/julia-buildpkg@v1
       - name: Clone Downstream
         uses: actions/checkout@v6
@@ -72,6 +65,6 @@ jobs:
           echo "This action requires the downstream dependencies' branches to be set to their main/master to succeed. Please switch them back and ensure tests pass before merging"
           exit 1
       - uses: julia-actions/julia-processcoverage@v1
-      - uses: codecov/codecov-action@v5
+      - uses: codecov/codecov-action@v6
         with:
           files: lcov.info

.gitignore

@@ -6,4 +6,5 @@
 docs/Manifest.toml
 test/Manifest.toml
 docs/build/
-benchmark/Manifest.toml
+benchmark/Manifest.toml
+frontend