chore: update TOML configuration and .gitignore

Author: zotko

.gitignore

@@ -159,3 +159,4 @@ cython_debug/
 *.swp
 *.swo
 **/.DS_Store
+.python-version

pyproject.toml

@@ -8,10 +8,8 @@ dynamic = ["version"]
 description = "Package for reading of .xyz files and constructing of molecular graphs from atomic coordinates."
 readme = "README.md"
 requires-python = ">=3.8"
-license = {file = "LICENSE" }
-authors = [
-    { name = "Mykola Zotko", email = "dev.zotko@outlook.de" }
-]
+license = { file = "LICENSE" }
+authors = [{ name = "Mykola Zotko", email = "dev.zotko@outlook.de" }]
 keywords = ["chemistry", "molecular-graphs", "xyz-files", "visualization"]
 classifiers = [
     "Development Status :: 5 - Production/Stable",
@@ -27,11 +25,7 @@ classifiers = [
     "Topic :: Scientific/Engineering :: Chemistry",
     "Topic :: Scientific/Engineering :: Visualization",
 ]
-dependencies = [
-    "numpy>=1.21.0",
-    "plotly>=5.0.0",
-    "networkx>=2.6.0",
-]
+dependencies = ["numpy>=1.21.0", "plotly>=5.0.0", "networkx>=2.6.0"]
 
 [tool.hatch.version]
 source = "vcs"
@@ -46,7 +40,8 @@ Documentation = "https://zotko.github.io/xyz2graph"
 docs = [
     "mkdocs>=1.6.0",
     "mkdocs-material>=9.5.0",
-    "mkdocstrings[python]>=1.12.0"
+    "mkdocstrings[python]>=0.18",
+    "mkdocs-include-markdown-plugin",
 ]
 dev = [
     "pytest>=7.0.0,<8.0.0",
@@ -55,6 +50,7 @@ dev = [
     "mypy>=1.0.0,<2.0.0",
     "build>=1.0.0,<2.0.0",
     "twine>=4.0.0,<5.0.0",
+    "pre-commit>=3.5.0",
 ]
 
 [tool.ruff]