Bump ase from 3.24.0 to 3.25.0 (#454)

* Bump ase from 3.24.0 to 3.25.0

Bumps [ase](https://gitlab.com/ase/ase) from 3.24.0 to 3.25.0.
- [Changelog](https://gitlab.com/ase/ase/blob/master/CHANGELOG.rst)
- [Commits](https://gitlab.com/ase/ase/compare/3.24.0...3.25.0)

---
updated-dependencies:
- dependency-name: ase
  dependency-version: 3.25.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

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

* [dependabot skip] Update environment

* Update environment-docs.yml

* Update environment.yml

* Update pyproject.toml

* Update environment-lammps.yml

* Update environment-docs.yml

* Update environment.yml

* Update pyproject.toml

* Update environment.yml

* Update environment-notebooks.yml

* Update environment-docs.yml

* Update environment.yml

* Update pyproject.toml

* Update environment.yml

---------

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
Co-authored-by: Jan Janssen <jan-janssen@users.noreply.github.com>

Author: 3 people

.ci_support/environment-docs.yml

@@ -6,18 +6,18 @@ dependencies:
 - sphinx_rtd_theme
 - myst-parser
 - numpy
-- ase =3.24.0
+- ase =3.25.0
 - coverage
 - numpy =1.26.3
 - scipy =1.15.0
 - spglib =2.6.0
 - phonopy =2.38.0
-- structuretoolkit =0.0.29
+- structuretoolkit =0.0.32
 - seekpath =2.1.0
 - lammps =2024.06.27
 - pandas =2.2.3
 - pylammpsmpi =0.2.32
 - jinja2 =3.1.6
 - jupyter-book =1.0.0
-- pyiron_lammps =0.4.0
-- pyiron_vasp =0.2.4
+- pyiron_lammps =0.4.1
+- pyiron_vasp =0.2.5

.ci_support/environment-lammps.yml

@@ -8,4 +8,4 @@ dependencies:
 - jinja2 =3.1.6
 - iprpy-data =2023.07.25
 - dynaphopy =1.17.16
-- pyiron_lammps =0.4.0
+- pyiron_lammps =0.4.1

.ci_support/environment-notebooks.yml

@@ -9,4 +9,4 @@ dependencies:
 - pylammpsmpi =0.2.31
 - jinja2 =3.1.6
 - dynaphopy =1.17.16
-- pyiron_lammps =0.4.0
+- pyiron_lammps =0.4.1

.ci_support/environment.yml

@@ -1,7 +1,7 @@
 channels:
 - conda-forge
 dependencies:
-- ase =3.24.0
+- ase =3.25.0
 - coverage
 - lxml =5.3.2
 - mendeleev =0.19.0
@@ -12,7 +12,7 @@ dependencies:
 - scipy =1.15.2
 - seekpath =2.1.0
 - spglib =2.6.0
-- structuretoolkit =0.0.31
+- structuretoolkit =0.0.32
 - sphinx_parser =0.0.1
 - tqdm =4.67.1
-- pyiron_vasp =0.2.4
+- pyiron_vasp =0.2.5

binder/environment.yml

@@ -1,12 +1,12 @@
 channels:
 - conda-forge
 dependencies:
-- ase =3.24.0
+- ase =3.25.0
 - numpy =1.26.4
 - scipy =1.15.2
 - spglib =2.6.0
 - phonopy =2.38.0
-- structuretoolkit =0.0.31
+- structuretoolkit =0.0.32
 - seekpath =2.1.0
 - gpaw =24.6.0
 - lammps =2024.06.27
@@ -15,5 +15,5 @@ dependencies:
 - jinja2 =3.1.6
 - dynaphopy =1.17.16
 - tqdm =4.67.1
-- pyiron_lammps =0.4.0
-- pyiron_vasp =0.2.4
+- pyiron_lammps =0.4.1
+- pyiron_vasp =0.2.5

pyproject.toml

@@ -24,7 +24,7 @@ classifiers = [
     "Programming Language :: Python :: 3.12",
 ]
 dependencies = [
-    "ase==3.24.0",
+    "ase==3.25.0",
     "numpy==1.26.4",
     "scipy==1.15.2",
     "spglib==2.6.0",
@@ -40,7 +40,7 @@ Repository = "https://github.com/pyiron/atomistics"
 phonopy = [
     "phonopy==2.38.0",
     "seekpath==2.1.0",
-    "structuretoolkit==0.0.31",
+    "structuretoolkit==0.0.32",
 ]
 gpaw = [
     "gpaw==24.6.0",
@@ -49,14 +49,14 @@ lammps = [
     "pylammpsmpi==0.2.32",
     "jinja2==3.1.6",
     "pandas==2.2.3",
-    "pyiron_lammps==0.4.0",
+    "pyiron_lammps==0.4.1",
 ]
 lammps_phonons = [
     "pylammpsmpi==0.2.32",
     "jinja2==3.1.6",
     "pandas==2.2.3",
     "dynaphopy==1.17.16",
-    "pyiron_lammps==0.4.0",
+    "pyiron_lammps==0.4.1",
 ]
 experimental = [
     "lxml==5.3.2",
@@ -74,7 +74,7 @@ tqdm = [
     "tqdm==4.67.1"
 ]
 vasp = [
-    "pyiron_vasp==0.2.4"
+    "pyiron_vasp==0.2.5"
 ]
 
 [tool.setuptools.packages.find]