MAINT: Update dependency specifiers (#13459)

Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: Eric Larson <[email protected]>

Author: 3 people

.github/workflows/credit.yml

@@ -40,6 +40,6 @@ jobs:
           git checkout -b credit
           git commit -am "MAINT: Update code credit"
           git push origin credit
-          PR_NUM=$(gh pr create --base main --head credit --title "MAINT: Update code credit" --body "Created by credit [GitHub action](https://github.com/mne-tools/mne-python/actions/runs/${{ github.run_id }})." --label "no-changelog-entry-needed")
+          PR_NUM=$(gh pr create --base main --head credit --title "MAINT: Update code credit" --body "Created by credit [GitHub action](https://github.com/mne-tools/mne-python/actions/runs/${{ github.run_id }}). <br> <br> *Adjustments may need to be made to `doc/changes/credit_tools.py` or `.mailmap` etc. to get CircleCI to pass.*" --label "no-changelog-entry-needed")
           echo "Opened https://github.com/mne-tools/mne-python/pull/${PR_NUM}" >> $GITHUB_STEP_SUMMARY
         if: steps.status.outputs.dirty == 'true'

.github/workflows/spec_zero.yml

@@ -57,6 +57,6 @@ jobs:
           git checkout -b spec_zero
           git commit -am "MAINT: Update dependency specifiers"
           git push origin spec_zero
-          PR_NUM=$(gh pr create --base main --head spec_zero --title "MAINT: Update dependency specifiers" --body "Created by spec_zero [GitHub action](https://github.com/mne-tools/mne-python/actions/runs/${{ github.run_id }})." --label "no-changelog-entry-needed")
+          PR_NUM=$(gh pr create --base main --head spec_zero --title "MAINT: Update dependency specifiers" --body "Created by spec_zero [GitHub action](https://github.com/mne-tools/mne-python/actions/runs/${{ github.run_id }}). <br> <br> *Adjustments may need to be made to shims in mne/fixes.py in this or another PR. `git grep TODO VERSION` is a good starting point for finding potential updates.*" --label "no-changelog-entry-needed")
           echo "Opened https://github.com/mne-tools/mne-python/pull/${PR_NUM}" >> $GITHUB_STEP_SUMMARY
         if: steps.status.outputs.dirty == 'true'

environment.yml

@@ -45,11 +45,11 @@ dependencies:
   - PySide6 !=6.9.1
   - python-neo
   - python-picard
-  - pyvista >=0.32,!=0.35.2,!=0.38.0,!=0.38.1,!=0.38.2,!=0.38.3,!=0.38.4,!=0.38.5,!=0.38.6,!=0.42.0
-  - pyvistaqt >=0.4
+  - pyvista >=0.42.1
+  - pyvistaqt >=0.11
   - qdarkstyle !=3.2.2
   - qtpy
-  - scikit-learn >=1.3.0
+  - scikit-learn >=1.3
   - scipy >=1.11
   - sip
   - snirf

mne/viz/backends/_pyvista.py

@@ -212,7 +212,8 @@ def __init__(
     ):
         from .._3d import _get_3d_option
 
-        _require_version("pyvista", "use 3D rendering", "0.32")
+        # TODO VERSION change whenever PyVista min gets updated:
+        _require_version("pyvista", "use 3D rendering", "0.42")
         multi_samples = _get_3d_option("multi_samples")
         # multi_samples > 1 is broken on macOS + Intel Iris + volume rendering
         if platform.system() == "Darwin":

pyproject.toml

@@ -23,11 +23,11 @@ dependencies = [
   "decorator",
   "jinja2",
   "lazy_loader >= 0.3",
-  "matplotlib >= 3.8",  # released: 2023/09/15
-  "numpy >= 1.26,<3",  # released: 2023/09/16
+  "matplotlib >= 3.8",  # released 2023-09-15, will become 3.9 on 2026-05-15
+  "numpy >= 1.26, < 3",  # released 2023-09-16, will become 2.0 on 2026-06-16
   "packaging",
   "pooch >= 1.5",
-  "scipy >= 1.11",  # released: 2023/06/25
+  "scipy >= 1.11",  # released 2023-06-28, will become 1.12 on 2026-01-19
   "tqdm",
 ]
 description = "MNE-Python project for MEG and EEG data analysis."
@@ -78,7 +78,7 @@ doc = [
   "sphinx-gallery >= 0.16",
   "sphinx_copybutton",
   "sphinxcontrib-bibtex >= 2.5",
-  "sphinxcontrib-towncrier >=0.5.0a0",
+  "sphinxcontrib-towncrier >= 0.5.0a0",
   "sphinxcontrib-youtube",
 ]
 full = ["mne[full-no-qt]", "PyQt6 != 6.6.0", "PyQt6-Qt6 != 6.6.0, != 6.7.0"]
@@ -112,17 +112,17 @@ full-no-qt = [
   "nilearn",
   "numba",
   "openmeeg >= 2.5.7",
-  "pandas >= 2.1",  # released: 2023/08/30
+  "pandas >= 2.1",  # released 2023-08-30, will become 2.2 on 2026-01-19
   "pillow",  # for `Brain.save_image` and `mne.Report`
   "pyarrow",  # only needed to avoid a deprecation warning in pandas
   "pybv",
   "pyobjc-framework-Cocoa >= 5.2.0; platform_system == 'Darwin'",
   "python-picard",
-  "pyvista >= 0.32, != 0.35.2, != 0.38.0, != 0.38.1, != 0.38.2, != 0.38.3, != 0.38.4, != 0.38.5, != 0.38.6, != 0.42.0",
-  "pyvistaqt >= 0.4",
+  "pyvista >= 0.42.1",  # released 2023-09-06, will become 0.43 on 2025-12-06
+  "pyvistaqt >= 0.11",  # released 2023-06-30, no newer version available
   "qdarkstyle != 3.2.2",
   "qtpy",
-  "scikit-learn >=1.3.0",  # released: 2023/06/30
+  "scikit-learn >= 1.3",  # released 2023-06-30, will become 1.4 on 2026-01-17
   "sip",
   "snirf",
   "statsmodels",
@@ -152,7 +152,7 @@ test = [
   "pytest-timeout",
   "ruff",
   "toml-sort",
-  "tomli; python_version<'3.11'",
+  "tomli; python_version < '3.11'",
   "twine",
   "vulture",
   "wheel",