Merge branch 'master' into minordoc

bids-standard · Nov 27, 2023 · c234518 · c234518
2 parents e73e0bc + f7d1298
commit c234518
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diff --git a/.all-contributorsrc b/.all-contributorsrc
@@ -192,6 +192,13 @@
             "login": "ali_khan",
             "name": "Ali Khan"
         },
+        {
+            "contributions": [
+                "tool"
+            ],
+            "login": "alizee_wickenheiser",
+            "name": "Alizee Wickenheiser"
+        },
         {
             "contributions": [
                 "userTesting"
@@ -443,6 +450,14 @@
             "login": "carlo_miniussi",
             "name": "Carlo Miniussi"
         },
+        {
+            "contributions": [
+                "data",
+                "tool"
+            ],
+            "login": "cecile_madjar",
+            "name": "Cecile Madjar"
+        },
         {
             "contributions": [
                 "doc"
@@ -1002,7 +1017,8 @@
                 "tool",
                 "eventOrganizing",
                 "fundingFinding",
-                "infra"
+                "infra",
+                "talk"
             ],
             "login": "francopestilli",
             "name": "Franco Pestilli",
@@ -1461,6 +1477,13 @@
             "name": "Jeanette Mumford",
             "profile": "https://jeanettemumford.org/"
         },
+        {
+            "contributions": [
+                "tool"
+            ],
+            "login": "jefferson_casimir",
+            "name": "Jefferson Casimir"
+        },
         {
             "contributions": [
                 "doc"
@@ -1799,6 +1822,13 @@
             "name": "Kurt Schilling",
             "profile": "https://github.com/schillkg"
         },
+        {
+            "contributions": [
+                "tool"
+            ],
+            "login": "laetitia_fesselier",
+            "name": "Laetitia Fesselier"
+        },
         {
             "contributions": [
                 "financial"
@@ -2728,6 +2758,17 @@
             "login": "stephan_bickel",
             "name": "Stephan Bickel"
         },
+        {
+            "contributions": [
+                "bug",
+                "code",
+                "question",
+                "tool",
+                "userTesting"
+            ],
+            "login": "smeisler",
+            "name": "Steven Meisler"
+        },
         {
             "avatar_url": "https://avatars.githubusercontent.com/u/11152799?v=4",
             "contributions": [
@@ -2987,6 +3028,14 @@
             "name": "Tristan Glatard",
             "profile": "https://github.com/glatard"
         },
+        {
+            "contributions": [
+                "data",
+                "tool"
+            ],
+            "login": "tyler_collins",
+            "name": "Tyler Collins"
+        },
         {
             "contributions": [
                 "doc"
@@ -3091,7 +3140,14 @@
                 "tool",
                 "question",
                 "bug",
-                "code"
+                "code",
+                "data",
+                "fundingFinding",
+                "ideas",
+                "plugin",
+                "review",
+                "userTesting",
+                "infra"
             ],
             "login": "yarikoptic",
             "name": "Yaroslav O. Halchenko",

diff --git a/.codespellrc b/.codespellrc
@@ -1,6 +1,6 @@
 [codespell]
 skip = *.js,*.svg,*.eps,.git,node_modules,env,venv,.mypy_cache,package-lock.json,CITATION.cff,tools/new_contributors.tsv,./tools/schemacode/docs/build
-ignore-words-list = fo,te,als,Acknowledgements,acknowledgements,weill,bu,winn
+ignore-words-list = fo,te,als,Acknowledgements,acknowledgements,weill,bu,winn,manuel
 builtin = clear,rare,en-GB_to_en-US
 # this overloads default dictionaries and I have not yet figured out
 # how to have multiple https://github.com/codespell-project/codespell/issues/2727

diff --git a/.github/workflows/schemacode_ci.yml b/.github/workflows/schemacode_ci.yml
@@ -26,7 +26,7 @@ jobs:
         os: ["ubuntu-latest"]
         python-version: ["3.11"]
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
       - uses: actions/setup-python@v4
         with:
           python-version: ${{ matrix.python-version }}
@@ -56,20 +56,21 @@ jobs:
       fail-fast: false
       matrix:
         os: ["ubuntu-latest"]
-        python-version: ["3.8", "3.9", "3.10", "3.11"]
+        python-version: ["3.8", "3.9", "3.10", "3.11", "3.12"]
         include:
           - os: macos-latest
             python-version: 3
           - os: windows-latest
             python-version: 3
     name: ${{ matrix.os }} with Python ${{ matrix.python-version }}
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
 
       - name: "Set up Python"
         uses: actions/setup-python@v4
         with:
           python-version: ${{ matrix.python-version }}
+          allow-prereleases: true
 
       - name: "Display Python version"
         run: python -c "import sys; print(sys.version)"
@@ -129,12 +130,12 @@ jobs:
     runs-on: ubuntu-latest
     name: Validate schema
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
 
       - name: Set Up Python environment
         uses: actions/setup-python@v4
         with:
-          python-version: "3.9"
+          python-version: "3.11"
 
       - name: Install the schemacode package
         run: |
@@ -157,7 +158,7 @@ jobs:
     needs: [test, validate_schema]
     steps:
       - name: Checkout
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
 
       - name: Download artifacts
         uses: actions/download-artifact@v3

diff --git a/.github/workflows/validation.yml b/.github/workflows/validation.yml
@@ -16,15 +16,15 @@ jobs:
   codespell:
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
       - uses: codespell-project/actions-codespell@master
 
   # Markdown formatting
   remark:
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v3
-      - uses: actions/setup-node@v3
+      - uses: actions/checkout@v4
+      - uses: actions/setup-node@v4
         with:
           node-version: 14
       - name: Install dependencies
@@ -36,7 +36,7 @@ jobs:
   yamllint:
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
       - uses: actions/setup-python@v4
         with:
           python-version: 3
@@ -49,7 +49,7 @@ jobs:
   python-style:
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
       - uses: actions/setup-python@v4
         with:
           python-version: 3
@@ -63,7 +63,7 @@ jobs:
   latin-phrases:
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
       - uses: actions/setup-python@v4
         with:
           python-version: 3
@@ -86,7 +86,7 @@ jobs:
   validate_cff:
     runs-on: ubuntu-latest
     steps:
-    - uses: actions/checkout@v3
+    - uses: actions/checkout@v4
     - uses: actions/setup-python@v4
       with:
         python-version: 3

diff --git a/.lgtm.yml b/.lgtm.yml
diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
@@ -3,7 +3,7 @@
 exclude: 'tools/schemacode/bidsschematools/tests/data/broken_dataset_description.json'
 repos:
   - repo: https://github.com/pre-commit/pre-commit-hooks
-    rev: v4.4.0
+    rev: v4.5.0
     hooks:
       - id: trailing-whitespace
       - id: end-of-file-fixer
@@ -13,7 +13,7 @@ repos:
       - id: check-added-large-files
       - id: check-case-conflict
   - repo: https://github.com/psf/black
-    rev: 23.7.0
+    rev: 23.11.0
     hooks:
       - id: black
         files: ^tools/(?!schemacode)
@@ -38,17 +38,17 @@ repos:
       - id: flake8
         args: [--config=tools/schemacode/setup.cfg]
   - repo: https://github.com/pre-commit/mirrors-prettier
-    rev: v3.0.0
+    rev: v3.1.0
     hooks:
       - id: prettier
         files: src/schema/.*/.*\.yaml
   - repo: https://github.com/codespell-project/codespell
-    rev: v2.2.5
+    rev: v2.2.6
     hooks:
       - id: codespell
         args: ["--config=.codespellrc", "--dictionary=-", "--dictionary=.codespell_dict"]
   - repo: https://github.com/pre-commit/mirrors-mypy
-    rev: v1.4.1
+    rev: v1.7.0
     hooks:
       - id: mypy
         # Sync with project.optional-dependencies.typing