updated linters due to deprecation warning

makefile

@@ -12,7 +12,7 @@ lint:
  @echo "--- 🧹 Running linters ---"
  pyproject-parser check pyproject.toml # check pyproject.toml
  ruff format . # running ruff formatting (.ipynb, .py)
- ruff **/*.py --fix   # running ruff linting (.py)
+ ruff check **/*.py --fix # running ruff linting (.py)
 
 test:
  @echo "--- 🧪 Running tests ---"

pyproject.toml

@@ -92,7 +92,7 @@ pythonPlatform = "Darwin"
 [tool.ruff]
 extend-include = ["*.ipynb"]
 # Enable pycodestyle (`E`) and Pyflakes (`F`) codes by default.
-select = [
+lint.select = [
  "A",
  "ANN",
  "ARG",
@@ -120,7 +120,7 @@ select = [
  "SIM",
  "W",
 ]
-ignore = [
+lint.ignore = [
  "ANN101",
  "ANN401",
  "E402",
@@ -130,9 +130,9 @@ ignore = [
  "RET504",
  "COM812",
 ]
-ignore-init-module-imports = true
+lint.ignore-init-module-imports = true
 # Allow autofix for all enabled rules (when `--fix`) is provided.
-unfixable = ["ERA"]
+lint.unfixable = ["ERA"]
 # Exclude a variety of commonly ignored directories.
 exclude = [
  ".bzr",
@@ -158,10 +158,10 @@ exclude = [
  "docs/conf.py",
 ]
 # Allow unused variables when underscore-prefixed.
-dummy-variable-rgx = "^(_+|(_+[a-zA-Z0-9_]*[a-zA-Z0-9]+?))$"
+lint.dummy-variable-rgx = "^(_+|(_+[a-zA-Z0-9_]*[a-zA-Z0-9]+?))$"
 target-version = "py38"
 
-[tool.ruff.flake8-annotations]
+[tool.ruff.lint.flake8-annotations]
 mypy-init-return = true
 suppress-none-returning = true