chore(deps): bump the python group across 1 directory with 18 updates

Updates the requirements on [importlib-metadata](https://github.com/python/importlib_metadata), [h5netcdf](https://github.com/h5netcdf/h5netcdf), [rich](https://github.com/Textualize/rich), [dask](https://github.com/dask/dask), [tomlkit](https://github.com/sdispater/tomlkit), [responses](https://github.com/getsentry/responses), [bayesian-optimization](https://github.com/bayesian-optimization/BayesianOptimization), [gdstk](https://github.com/heitzmann/gdstk), [mypy](https://github.com/python/mypy), [networkx](https://github.com/networkx/networkx), [orbax-checkpoint](https://github.com/google/orbax), [pydata-sphinx-theme](https://github.com/pydata/pydata-sphinx-theme), [pygad](https://github.com/ahmedfgad/GeneticAlgorithmPython), [pytest-cov](https://github.com/pytest-dev/pytest-cov), [rtree](https://github.com/Toblerity/rtree), [ruff](https://github.com/astral-sh/ruff), [sax](https://github.com/flaport/sax) and [trame-vuetify](https://github.com/Kitware/trame-vuetify) to permit the latest version.

Updates `importlib-metadata` to 9.0.0
- [Release notes](https://github.com/python/importlib_metadata/releases)
- [Changelog](https://github.com/python/importlib_metadata/blob/main/NEWS.rst)
- [Commits](python/importlib_metadata@v6.0.0...v9.0.0)

Updates `h5netcdf` from 1.0.2 to 1.8.1
- [Release notes](https://github.com/h5netcdf/h5netcdf/releases)
- [Changelog](https://github.com/h5netcdf/h5netcdf/blob/main/CHANGELOG.rst)
- [Commits](h5netcdf/h5netcdf@v1.0.2...v1.8.1)

Updates `rich` to 14.3.3
- [Release notes](https://github.com/Textualize/rich/releases)
- [Changelog](https://github.com/Textualize/rich/blob/master/CHANGELOG.md)
- [Commits](Textualize/rich@v13.0.0...v14.3.3)

Updates `dask` to 2026.3.0
- [Release notes](https://github.com/dask/dask/releases)
- [Changelog](https://github.com/dask/dask/blob/main/docs/release-procedure.md)
- [Commits](dask/dask@2025.12.0...2026.3.0)

Updates `tomlkit` to 0.14.0
- [Release notes](https://github.com/sdispater/tomlkit/releases)
- [Changelog](https://github.com/python-poetry/tomlkit/blob/master/CHANGELOG.md)
- [Commits](python-poetry/tomlkit@0.13.2...0.14.0)

Updates `responses` to 0.26.0
- [Release notes](https://github.com/getsentry/responses/releases)
- [Changelog](https://github.com/getsentry/responses/blob/master/CHANGES)
- [Commits](getsentry/responses@0.25.8...0.26.0)

Updates `bayesian-optimization` to 3.2.1
- [Release notes](https://github.com/bayesian-optimization/BayesianOptimization/releases)
- [Commits](bayesian-optimization/BayesianOptimization@0.4...v3.2.1)

Updates `gdstk` to 1.0.0
- [Release notes](https://github.com/heitzmann/gdstk/releases)
- [Changelog](https://github.com/heitzmann/gdstk/blob/main/CHANGELOG.md)
- [Commits](heitzmann/gdstk@v0.9.49...v1.0.0)

Updates `mypy` from 1.13.0 to 1.19.1
- [Changelog](https://github.com/python/mypy/blob/master/CHANGELOG.md)
- [Commits](python/mypy@v1.13.0...v1.19.1)

Updates `networkx` to 3.4.2
- [Release notes](https://github.com/networkx/networkx/releases)
- [Commits](networkx/networkx@networkx-2.6.3...networkx-3.4.2)

Updates `orbax-checkpoint` to 0.11.33
- [Release notes](https://github.com/google/orbax/releases)
- [Changelog](https://github.com/google/orbax/blob/main/CHANGELOG.md)
- [Commits](google/orbax@v0.0.0...v0.11.33)

Updates `pydata-sphinx-theme` to 0.16.1
- [Release notes](https://github.com/pydata/pydata-sphinx-theme/releases)
- [Changelog](https://github.com/pydata/pydata-sphinx-theme/blob/main/RELEASE.md)
- [Commits](pydata/pydata-sphinx-theme@v0.13.3...v0.16.1)

Updates `pygad` from 3.3.1 to 3.5.0
- [Release notes](https://github.com/ahmedfgad/GeneticAlgorithmPython/releases)
- [Commits](ahmedfgad/GeneticAlgorithmPython@3.3.1...3.5.0)

Updates `pytest-cov` to 7.1.0
- [Changelog](https://github.com/pytest-dev/pytest-cov/blob/master/CHANGELOG.rst)
- [Commits](pytest-dev/pytest-cov@v6.0.0...v7.1.0)

Updates `rtree` from 1.2.0 to 1.4.1
- [Release notes](https://github.com/Toblerity/rtree/releases)
- [Changelog](https://github.com/Toblerity/rtree/blob/main/CHANGES.rst)
- [Commits](Toblerity/rtree@1.2.0...1.4.1)

Updates `ruff` from 0.11.11 to 0.15.7
- [Release notes](https://github.com/astral-sh/ruff/releases)
- [Changelog](https://github.com/astral-sh/ruff/blob/main/CHANGELOG.md)
- [Commits](astral-sh/ruff@0.11.11...0.15.7)

Updates `sax` to 0.14.2
- [Release notes](https://github.com/flaport/sax/releases)
- [Changelog](https://github.com/flaport/sax/blob/main/CHANGELOG.md)
- [Commits](flaport/sax@0.11.0...0.14.2)

Updates `trame-vuetify` to 3.2.1
- [Release notes](https://github.com/Kitware/trame-vuetify/releases)
- [Changelog](https://github.com/Kitware/trame-vuetify/blob/master/CHANGELOG.md)
- [Commits](Kitware/trame-vuetify@v2.0.1...v3.2.1)

---
updated-dependencies:
- dependency-name: importlib-metadata
  dependency-version: 9.0.0
  dependency-type: direct:production
  dependency-group: python
- dependency-name: h5netcdf
  dependency-version: 1.8.1
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: python
- dependency-name: rich
  dependency-version: 14.3.3
  dependency-type: direct:production
  dependency-group: python
- dependency-name: dask
  dependency-version: 2026.3.0
  dependency-type: direct:production
  dependency-group: python
- dependency-name: tomlkit
  dependency-version: 0.14.0
  dependency-type: direct:production
  dependency-group: python
- dependency-name: responses
  dependency-version: 0.26.0
  dependency-type: direct:production
  dependency-group: python
- dependency-name: bayesian-optimization
  dependency-version: 3.2.1
  dependency-type: direct:development
  dependency-group: python
- dependency-name: gdstk
  dependency-version: 1.0.0
  dependency-type: direct:development
  dependency-group: python
- dependency-name: mypy
  dependency-version: 1.19.1
  dependency-type: direct:development
  update-type: version-update:semver-minor
  dependency-group: python
- dependency-name: networkx
  dependency-version: 3.4.2
  dependency-type: direct:development
  dependency-group: python
- dependency-name: orbax-checkpoint
  dependency-version: 0.11.33
  dependency-type: direct:development
  dependency-group: python
- dependency-name: pydata-sphinx-theme
  dependency-version: 0.16.1
  dependency-type: direct:development
  dependency-group: python
- dependency-name: pygad
  dependency-version: 3.5.0
  dependency-type: direct:development
  update-type: version-update:semver-minor
  dependency-group: python
- dependency-name: pytest-cov
  dependency-version: 7.1.0
  dependency-type: direct:development
  dependency-group: python
- dependency-name: rtree
  dependency-version: 1.4.1
  dependency-type: direct:development
  update-type: version-update:semver-minor
  dependency-group: python
- dependency-name: ruff
  dependency-version: 0.15.7
  dependency-type: direct:development
  update-type: version-update:semver-minor
  dependency-group: python
- dependency-name: sax
  dependency-version: 0.14.2
  dependency-type: direct:development
  dependency-group: python
- dependency-name: trame-vuetify
  dependency-version: 3.2.1
  dependency-type: direct:development
  dependency-group: python
...

Signed-off-by: dependabot[bot] <support@github.com>

Author: dependabot[bot]

pyproject.toml

@@ -18,28 +18,28 @@ classifiers = [
 dependencies = [
   "pyroots>=0.5.0,<0.6.0",
   "xarray>=2023.08,<2026.0.0",
-  "importlib-metadata>=6.0.0,<9.0.0",
-  "h5netcdf==1.0.2",
+  "importlib-metadata>=6.0.0,<10.0.0",
+  "h5netcdf==1.8.1",
   "h5py>=3.0.0,<3.15; python_version < '3.14'",
   "h5py>=3.16.0,<3.17; python_version >= '3.14'",
-  "rich>=13.0,<14.0",
+  "rich>=13.0,<15.0",
   "numpy>=2.2.6,<2.5.0",
   "matplotlib>=3.10.0,<4.0.0",
   "shapely>=2.0,<3.0",
   "pandas>=2.2,<3.0",
   "pydantic>=2.10.3,<3",
   "pydantic-settings>=2.10.0,<3.0.0",
   "PyYAML>=6.0.3,<7.0.0",
-  "dask>=2025.12.0,<2026.0.0",
+  "dask>=2025.12.0,<2027.0.0",
   "toml>=0.10.2,<0.11.0",
-  "tomlkit>=0.13.2,<0.14.0",
+  "tomlkit>=0.13.2,<0.15.0",
   "autograd>=1.7.0,<2.0.0",
   "scipy>=1.14,<2.0",
   "boto3>=1.28.0,<2.0.0",
   "requests>=2.31.0,<3.0.0",
   "pyjwt>=2.10.1,<3.0.0",
   "click>=8.1.0,<9.0.0",
-  "responses>=0.25.8,<0.26.0",
+  "responses>=0.25.8,<0.27.0",
   "joblib>=1.5.3,<2.0.0",
   "typing-extensions>=4.15.0,<5.0.0",
   "filelock>=3.20.1,<4.0.0",
@@ -53,10 +53,10 @@ Documentation = "https://docs.flexcompute.com/projects/tidy3d/en/latest/"
 
 [project.optional-dependencies]
 dev = [
-  "bayesian-optimization<2",
+  "bayesian-optimization<4",
   "coverage>=7.13.1,<8.0.0",
   "dill>=0.4.0,<0.5.0",
-  "gdstk>=0.9.49,<0.10.0",
+  "gdstk>=0.9.49,<1.1.0",
   "grcwa>=0.1.2,<0.2.0",
   "ipython>=8.38.0,<9.0.0",
   "torch>=2.2.0,<3.0.0; sys_platform == 'darwin'",
@@ -65,28 +65,28 @@ dev = [
   "jupyter>=1.1.1,<2.0.0",
   "myst-parser>=4.0.1,<5.0.0",
   "memory_profiler>=0.61.0,<0.62.0",
-  "mypy==1.13.0",
+  "mypy==1.20.0",
   "nbconvert>=7.17.0,<8.0.0",
   "nbdime>=4.0.2,<5.0.0",
   "nbsphinx>=0.8.7,<0.10.0",
-  "networkx>=2.6.3,<3.0.0",
+  "networkx>=2.6.3,<4.0.0",
   "optax>=0.2.2,<0.3.0",
-  "orbax-checkpoint<0.11.33",
+  "orbax-checkpoint<0.11.34",
   "psutil>=7.2.1,<8.0.0",
   "pre-commit>=4,<5",
-  "pydata-sphinx-theme>=0.13.3,<0.16.0",
-  "pygad==3.3.1",
+  "pydata-sphinx-theme>=0.13.3,<0.17.0",
+  "pygad==3.5.0",
   "pylint>=4.0.4,<5.0.0",
   "pyswarms>=1.3.0,<2.0.0",
   "pytest>=8.1,<10.0.0",
   "pytest-timeout>=2.4.0,<3.0.0",
   "pytest-xdist>=3.6.1,<4.0.0",
-  "pytest-cov>=6.0.0,<7.0.0",
+  "pytest-cov>=6.0.0,<8.0.0",
   "pytest-env>=1.1.5,<2.0.0",
   "pytest-testmon>=2.1.3,<3.0.0",
-  "rtree==1.2.0",
-  "ruff==0.11.11",
-  "sax>=0.11,<0.12",
+  "rtree==1.4.1",
+  "ruff==0.15.8",
+  "sax>=0.11,<0.15",
   "signac>=2.3.0,<3.0.0",
   "sphinx>=6,<9.0.0",
   "sphinx-book-theme>=1.0.1,<2.0.0",
@@ -106,30 +106,30 @@ dev = [
   "pyvista>=0.45,<0.48.0",
   "trame>=3.0.0,<4.0.0",
   "trame-vtk>=2.0.0,<3.0.0",
-  "trame-vuetify>=2.0.0,<3.0.0",
+  "trame-vuetify>=2.0.0,<4.0.0",
   "cma>=4.4.1,<5.0.0",
   "diff-cover>=10.1.0,<11.0.0",
   "openpyxl>=3.1.5,<4.0.0",
   "zizmor>=1.20.0,<2.0.0",
   "libcst>=1.5.0,<2.0.0",
 ]
 tests = [
-  "orbax-checkpoint<0.11.33",
+  "orbax-checkpoint<0.11.34",
   "psutil>=7.2.1,<8.0.0",
   "pre-commit>=4,<5",
   "pylint>=4.0.4,<5.0.0",
   "pytest>=8.1,<10.0.0",
   "pytest-timeout>=2.4.0,<3.0.0",
   "pytest-xdist>=3.6.1,<4.0.0",
   "pytest-env>=1.1.5,<2.0.0",
-  "pytest-cov>=6.0.0,<7.0.0",
+  "pytest-cov>=6.0.0,<8.0.0",
   "pytest-testmon>=2.1.3,<3.0.0",
   "trimesh>=4.6,<5.0.0",
-  "networkx>=2.6.3,<3.0.0",
-  "rtree==1.2.0",
+  "networkx>=2.6.3,<4.0.0",
+  "rtree==1.4.1",
 ]
 docs = [
-  "orbax-checkpoint<0.11.33",
+  "orbax-checkpoint<0.11.34",
   "jupyter>=1.1.1,<2.0.0",
   "jinja2>=3.1.2,<4.0.0",
   "nbconvert>=7.17.0,<8.0.0",
@@ -140,52 +140,52 @@ docs = [
   "sphinx-copybutton>=0.5.2,<0.6.0",
   "sphinx-favicon>=1.0.1,<2.0.0",
   "sphinx-book-theme>=1.0.1,<2.0.0",
-  "pydata-sphinx-theme>=0.13.3,<0.16.0",
+  "pydata-sphinx-theme>=0.13.3,<0.17.0",
   "tmm>=0.2.0,<0.3.0",
-  "gdstk>=0.9.49,<0.10.0",
+  "gdstk>=0.9.49,<1.1.0",
   "grcwa>=0.1.2,<0.2.0",
   "sphinx-sitemap>=2.5.1,<3.0.0",
   "sphinx-notfound-page>=1.1.0,<2.0.0",
   "nbdime>=4.0.2,<5.0.0",
   "optax>=0.2.2,<0.3.0",
   "signac>=2.3.0,<3.0.0",
-  "sax>=0.11,<0.12",
+  "sax>=0.11,<0.15",
   "pylint>=4.0.4,<5.0.0",
   "sphinx-tabs>=3.4.7,<4.0.0",
   "sphinxemoji>=0.3.2,<0.4.0",
   "myst-parser>=4.0.1,<5.0.0",
   "cma>=4.4.1,<5.0.0",
   "openpyxl>=3.1.5,<4.0.0",
 ]
-gdstk = ["gdstk>=0.9.49,<0.10.0"]
+gdstk = ["gdstk>=0.9.49,<1.1.0"]
 scikit-rf = ["scikit-rf>=1.9.0,<2.0.0"]
 trimesh = [
   "trimesh>=4.6,<5.0.0",
-  "networkx>=2.6.3,<3.0.0",
-  "rtree==1.2.0",
+  "networkx>=2.6.3,<4.0.0",
+  "rtree==1.4.1",
 ]
 vtk = ["vtk>=9.6.0,<10.0.0"]
 pyvista = [
   "pyvista>=0.45,<0.48.0",
   "vtk>=9.6.0,<10.0.0",
   "trame>=3.0.0,<4.0.0",
   "trame-vtk>=2.0.0,<3.0.0",
-  "trame-vuetify>=2.0.0,<3.0.0",
+  "trame-vuetify>=2.0.0,<4.0.0",
 ]
-ruff = ["ruff==0.11.11"]
+ruff = ["ruff==0.15.8"]
 heatcharge = [
   "trimesh>=4.6,<5.0.0",
-  "networkx>=2.6.3,<3.0.0",
-  "rtree==1.2.0",
+  "networkx>=2.6.3,<4.0.0",
+  "rtree==1.4.1",
   "vtk>=9.6.0,<10.0.0",
 ]
 pytorch = [
   "torch>=2.2.0,<3.0.0; sys_platform == 'darwin'",
   "torch>=2.2.0,<3.0.0; sys_platform != 'darwin'",
 ]
 design = [
-  "bayesian-optimization<2",
-  "pygad==3.3.1",
+  "bayesian-optimization<4",
+  "pygad==3.5.0",
   "pyswarms>=1.3.0,<2.0.0",
 ]
 extras = ["tidy3d-extras==2.11.0"]