ENH: Add mnelab, polars, update to vtk 9.3 and PySide6

.github/dependabot.yml

@@ -0,0 +1,10 @@
+version: 2
+updates:
+  - package-ecosystem: "github-actions"
+    directory: "/"
+    schedule:
+      interval: "weekly"
+    groups:
+      actions:
+        patterns:
+          - "*"

.github/release.yaml

@@ -0,0 +1,6 @@
+changelog:
+  exclude:
+    authors:
+      - dependabot
+      - pre-commit-ci
+      - github-actions

.github/workflows/build.yml

@@ -23,7 +23,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        os: [macos-11, macos-14]  # Intel and Apple Silicon, respectively
+        os: [macos-12, macos-14]  # Intel and Apple Silicon, respectively
     runs-on: ${{ matrix.os }}
     env:
       GITHUB_EVENT_NAME: ${{ github.event_name }}
@@ -34,10 +34,6 @@ jobs:
       - uses: actions/checkout@v3
       - uses: mamba-org/setup-micromamba@v1
         with:
-          condarc: |
-            channels:
-              - conda-forge
-            channel_priority: strict
           environment-file: environment.yml
       - run: ./tools/extract_version.sh
       - run: ./tools/macos_install_certificates.sh
@@ -72,7 +68,7 @@ jobs:
           path: MNE-Python-*.*
 
   build_linux:
-    name: Build (Linux)
+    name: Build (${{ matrix.os }})
     runs-on: ubuntu-20.04
     defaults:
       run:
@@ -81,10 +77,6 @@ jobs:
       - uses: actions/checkout@v3
       - uses: mamba-org/setup-micromamba@v1
         with:
-          condarc: |
-            channels:
-              - conda-forge
-            channel_priority: strict
           environment-file: environment.yml
       - run: ./tools/extract_version.sh
       - run: ./tools/run_constructor.sh
@@ -96,7 +88,7 @@ jobs:
           path: MNE-Python-*.*
 
   build_windows:
-    name: Build (Windows)
+    name: Build (${{ matrix.os }})
     strategy:
       fail-fast: false
     runs-on: windows-2019
@@ -107,10 +99,6 @@ jobs:
       - uses: actions/checkout@v3
       - uses: mamba-org/setup-micromamba@v1
         with:
-          condarc: |
-            channels:
-              - conda-forge
-            channel_priority: strict
           environment-file: environment.yml
       - run: ./tools/extract_version.sh
       - run: ./tools/run_constructor.sh
@@ -128,7 +116,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        os: [macos-11, macos-12, macos-13, macos-14]  # macos-14 is Apple Silicon; older versions are Intel
+        os: [macos-12, macos-13, macos-14]  # macos-14 is Apple Silicon; older versions are Intel
     runs-on: ${{ matrix.os }}
     defaults:
       run:
@@ -166,7 +154,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        os: [ubuntu-20.04, ubuntu-22.04]
+        os: [ubuntu-20.04, ubuntu-22.04, ubuntu-24.04]
     runs-on: ${{ matrix.os }}
     defaults:
       run:
@@ -225,37 +213,16 @@ jobs:
   release:
     name: Release
     needs: [build_macos, build_linux, build_windows, test_macos, test_linux, test_windows]
-    if: github.ref_type == 'tag'
     runs-on: ubuntu-latest
     defaults:
       run:
         shell: bash -el {0}
     steps:
       # These names should correspond to MNE_INSTALLER_ARTIFACT_ID in tools/extract_version.sh
-      - uses: actions/download-artifact@v3
-        with:
-          name: MNE-Python-Linux-x86_64
-      - uses: actions/download-artifact@v3
-        with:
-          name: MNE-Python-Linux-x86_64-json
-      - uses: actions/download-artifact@v3
-        with:
-          name: MNE-Python-Windows-x86_64
-      - uses: actions/download-artifact@v3
-        with:
-          name: MNE-Python-Windows-x86_64-json
-      - uses: actions/download-artifact@v3
-        with:
-          name: MNE-Python-macOS-x86_64
-      - uses: actions/download-artifact@v3
-        with:
-          name: MNE-Python-macOS-x86_64-json
-      - uses: actions/download-artifact@v3
-        with:
-          name: MNE-Python-macOS-arm64
-      - uses: actions/download-artifact@v3
+      - uses: actions/download-artifact@v4
         with:
-          name: MNE-Python-macOS-arm64-json
+          name: MNE-Python-*
+          merge-multiple: true
       - run: ls -al ./
       - uses: ncipollo/release-action@v1
         with:
@@ -265,3 +232,4 @@ jobs:
           prerelease: true
           allowUpdates: true
           generateReleaseNotes: true
+        if: github.ref_type == 'tag'

recipes/mne-python/construct.yaml

@@ -58,7 +58,7 @@ channels:
 
 specs:
   # Python
-  - python =3.12.2
+  - python =3.12.4
   - pip =24.0
   - conda =24.5.0
   - mamba =1.5.8
@@ -95,17 +95,17 @@ specs:
   - python-neo =0.13.1
   - pandas =2.2.2
   # BLAS
-  - scipy =1.13.1
+  - scipy =1.14.0
   - openblas =0.3.27
   - libblas =3.9.0=*openblas
   - jupyter =1.0.0
-  - jupyterlab =4.2.2
+  - jupyterlab =4.2.3
   - ipykernel =6.29.4
   - spyder-kernels =2.5.2
   - spyder =5.5.5
   - darkdetect =0.8.0
   - qdarkstyle =3.2.3
-  - numba =0.59.1
+  - numba =0.60.0
   - cython =3.0.10
   # I/O
   - pyxdf =1.16.6
@@ -115,7 +115,7 @@ specs:
   # Statistics
   - pingouin =0.5.4
   # MRI
-  - fsleyes =1.12.3
+  - fsleyes =1.12.4
   - dcm2niix =1.0.20240202
   - dipy =1.9.0
   # Time-frequency analysis
@@ -132,7 +132,6 @@ specs:
   - openneuro-py =2024.2.0
   # sleep staging
   - sleepecg =0.5.8
-  - yasa =0.6.4
   # various biological signals (ECG, EOG, EMG, …)
   - neurokit2 =0.2.9
   # GitHub client, https://cli.github.com
@@ -145,7 +144,7 @@ specs:
   - ipympl =0.9.4
   - seaborn =0.13.2
   - plotly =5.22.0
-  - vtk =9.2.6
+  - vtk =9.3.0
   - git =2.45.2  # [win]
   - make =4.3  # [win]
   - ipywidgets =8.1.3
@@ -166,26 +165,26 @@ specs:
   - pytest-qt =4.4.0
   - pytest-timeout =2.3.1
   - pre-commit =3.7.1
-  - ruff =0.4.10
+  - ruff =0.5.0
   - check-manifest =0.49.0
   - codespell =2.3.0
   - nitime =0.10.2
   - py-spy =0.3.14
   - line_profiler =4.1.1
   - memory_profiler =0.61.0
-  - twine =5.1.0
+  - twine =5.1.1
   - hatchling =1.25.0
   - hatch-vcs =0.4.0
   - mypy =1.10.1
   - towncrier =23.11.0
   - vulture =2.7
   # Doc building
   - numpydoc =1.7.0
-  - pydata-sphinx-theme =0.15.3
-  - graphviz =9.0.0
+  - pydata-sphinx-theme =0.15.4
+  - graphviz =11.0.0
   - python-graphviz =0.20.3
   - selenium =4.22.0
-  - sphinx =7.2.6
+  - sphinx =7.3.7
   - sphinx-design =0.6.0
   - sphinx-gallery =0.16.0
   - sphinxcontrib-bibtex =2.6.2

tests/test_imports.py

@@ -49,7 +49,10 @@ def check_min_version(package, min_version):
 import fooof
 import openneuro
 import sleepecg
-import yasa
+
+# Doesn't work with SciPy 1.14 and PR to fix it has not been merged:
+# https://github.com/raphaelvallat/yasa/pull/171
+# import yasa
 import neurokit2
 import questionary
 import matplotlib.pyplot

tests/test_outdated.py

@@ -38,15 +38,7 @@ class Package:  # noqa: D101
     version_conda_forge: str | None = None
 
 
-allowed_outdated: set[str] = {
-    "python",  # 3.12.3 needs libexpat >2.6 but VTK not happy about it
-    "sphinx",  # 7.3 compat in progress
-    "graphviz",  # conflicts with VTK 9.2.6 via libexpat
-    "vtk",  # 9.3.0 is out but mayavi (at least) hasn't been migrated
-    "numba",  # conflicts with VTK 9.2.6
-    # https://github.com/raphaelvallat/yasa/pull/171
-    "scipy",  # 1.14 drops a function used by yasa
-}
+allowed_outdated: set[str] = set()
 packages: list[Package] = []
 
 for spec in specs: