Merge branch 'master' into tb-logging

.github/workflows/CI.yml

@@ -21,38 +21,38 @@ jobs:
   test:
     name: Julia ${{ matrix.julia-version }}-${{ matrix.os }}-${{ matrix.test }}-${{ github.event_name }}
     runs-on: ${{ matrix.os }}
-    timeout-minutes: 120
+    timeout-minutes: 240
     strategy:
       fail-fast: false
       matrix:
         test:
-          - "unit"
-          - "integration"
+          - "part1"
+          - "part2"
+          - "part3"
         julia-version:
-          - "1.6"
-          - "1.8"
+          - "1.10"
           - "1"
         os:
           - ubuntu-latest
         include:
           - os: windows-latest
             julia-version: "1"
-            test: "unit"
+            test: "part1"
           - os: windows-latest
             julia-version: "1"
-            test: "integration"
+            test: "part2"
+          - os: windows-latest
+            julia-version: "1"
+            test: "part3"
           - os: macOS-latest
             julia-version: "1"
-            test: "unit"
+            test: "part1"
           - os: macOS-latest
             julia-version: "1"
-            test: "integration"
-          - os: ubuntu-latest
-            julia-version: "~1.11.0-0"
-            test: "unit"
-          - os: ubuntu-latest
-            julia-version: "~1.11.0-0"
-            test: "integration"
+            test: "part2"
+          - os: macOS-latest
+            julia-version: "1"
+            test: "part3"
 
     steps:
       - uses: actions/checkout@v4
@@ -62,6 +62,8 @@ jobs:
           version: ${{ matrix.julia-version }}
       - name: "Cache dependencies"
         uses: julia-actions/cache@v2
+        with:
+          cache-name: julia-cache;workflow=${{ github.workflow }};job=${{ github.job }};os=${{ matrix.os }};julia=${{ matrix.julia-version }};project=${{ hashFiles('**/Project.toml') }}
       - name: "Build package"
         uses: julia-actions/julia-buildpkg@v1
       - name: "Run tests"

.github/workflows/Documentation.yml

@@ -1,5 +1,4 @@
 name: Documentation
-# Modelled from DiffEqDocs
 
 on:
   push:
@@ -30,6 +29,7 @@ jobs:
         run: julia --project=docs/ -e 'using Pkg; Pkg.develop(PackageSpec(path=pwd())); Pkg.instantiate()'
       - name: "Build and deploy"
         env:
-          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} # For authentication with GitHub Actions token
-          DOCUMENTER_KEY: ${{ secrets.DOCUMENTER_KEY }} # For authentication with SSH deploy key
-        run: julia --project=docs/ docs/make.jl
+          DOCUMENTER_KEY_ASTROAUTOMATA: ${{ secrets.DOCUMENTER_KEY }}
+          DOCUMENTER_KEY_CAM: ${{ secrets.DAMTP_DEPLOY_KEY }}
+        run: |
+          julia --project=docs/ docs/make.jl

.github/workflows/check-format.yml

@@ -24,12 +24,8 @@ jobs:
       - name: "Cache dependencies"
         uses: julia-actions/cache@v2
       - name: Install JuliaFormatter and format
-        # This will use the latest version by default but you can set the version like so:
-        #
-        # julia  -e 'using Pkg; Pkg.add(PackageSpec(name="JuliaFormatter", version="0.13.0"))'
         run: |
-          julia  -e 'using Pkg; Pkg.add(PackageSpec(name="JuliaFormatter"))'
-          julia  -e 'using JuliaFormatter; format(".", verbose=true)'
+          julia --startup-file=no -e 'using Pkg; pkg"activate --temp"; pkg"add [email protected]"; using JuliaFormatter; format("."; verbose=true)'
       - name: "Format check"
         run: |
           julia -e '

.github/workflows/fix-format.yml

@@ -24,7 +24,7 @@ jobs:
           julia  -e 'using JuliaFormatter; format(".")'
       - name: "Create Pull Request"
         id: cpr
-        uses: peter-evans/create-pull-request@v6
+        uses: peter-evans/create-pull-request@v7
         with:
           token: ${{ secrets.GITHUB_TOKEN }}
           commit-message: Format .jl files

.gitignore

@@ -1,14 +1,16 @@
 .dataset*.jl
 .hyperparams*.jl
+outputs
 *.csv
+*.bak
 *.bkup
 performance*txt
 *.out
 trials*
 **/__pycache__
 build
 dist
-Manifest.toml
+Manifest*.toml
 *.cov
 .coveralls.yml
 **/*tmp*.jl
@@ -20,3 +22,4 @@ docs/src/index.md
 *.code-workspace
 .vscode
 **/*.json
+LocalPreferences.toml

.pre-commit-config.yaml

@@ -4,14 +4,14 @@ ci:
 
 repos:
   - repo: https://github.com/pre-commit/pre-commit-hooks
-    rev: v4.6.0
+    rev: v5.0.0
     hooks:
       - id: trailing-whitespace
       - id: end-of-file-fixer
       - id: check-yaml
       - id: check-added-large-files
   - repo: https://github.com/domluna/JuliaFormatter.jl
-    rev: v1.0.56
+    rev: v1.0.61
     hooks:
       - id: julia-formatter
   - repo: https://github.com/pre-commit/mirrors-prettier