Use argparse instead of click

.github/workflows/test.yml

@@ -45,17 +45,6 @@ jobs:
 
           debug: true
 
-  lint:
-    runs-on: ubuntu-latest
-    steps:
-      - uses: actions/checkout@v4
-      - uses: wntrblm/nox@2023.04.22
-        with:
-          python-versions: "3.12"
-      - name: Lint
-        run: nox --non-interactive --error-on-missing-interpreter --session "lint"
-
-
   coveralls_finish:
     needs: build-and-test
     runs-on: ubuntu-latest

.gitignore

@@ -1,105 +1,7 @@
-# Byte-compiled / optimized / DLL files
-__pycache__/
+*.egg-info/
 *.py[cod]
-*$py.class
-
-# C extensions
-*.so
-
-# Distribution / packaging
-.Python
+.coverage
+.nox/
+__pycache__/
 build/
-develop-eggs/
 dist/
-downloads/
-eggs/
-.eggs/
-lib/
-lib64/
-parts/
-sdist/
-var/
-wheels/
-*.egg-info/
-.installed.cfg
-*.egg
-MANIFEST
-
-# PyInstaller
-#  Usually these files are written by a python script from a template
-#  before PyInstaller builds the exe, so as to inject date/other infos into it.
-*.manifest
-*.spec
-
-# Installer logs
-pip-log.txt
-pip-delete-this-directory.txt
-
-# Unit test / coverage reports
-htmlcov/
-.tox/
-.coverage
-.coverage.*
-.cache
-nosetests.xml
-coverage.xml
-*.cover
-.hypothesis/
-.pytest_cache/
-
-# Translations
-*.mo
-*.pot
-
-# Django stuff:
-*.log
-local_settings.py
-db.sqlite3
-
-# Flask stuff:
-instance/
-.webassets-cache
-
-# Scrapy stuff:
-.scrapy
-
-# Sphinx documentation
-docs/_build/
-
-# PyBuilder
-target/
-
-# Jupyter Notebook
-.ipynb_checkpoints
-
-# pyenv
-.python-version
-
-# celery beat schedule file
-celerybeat-schedule
-
-# SageMath parsed files
-*.sage.py
-
-# Environments
-.env
-.nox
-.venv
-env/
-venv/
-ENV/
-env.bak/
-venv.bak/
-
-# Spyder project settings
-.spyderproject
-.spyproject
-
-# Rope project settings
-.ropeproject
-
-# mkdocs documentation
-/site
-
-# mypy
-.mypy_cache/

.pre-commit-config.yaml

@@ -45,13 +45,13 @@ repos:
   rev: v3.15.0
   hooks:
   - id: pyupgrade
-    args: [--py39-plus]
+    args: [--py310-plus]
 
-- repo: https://github.com/PyCQA/isort
-  rev: 5.13.2
+- repo: https://github.com/asottile/reorder-python-imports
+  rev: v3.12.0
   hooks:
-  - id: isort
-    files: \.py$
+  - id: reorder-python-imports
+    args: [--py310-plus, --add-import, "from __future__ import annotations"]
 
 - repo: https://github.com/pre-commit/pre-commit-hooks
   rev: v4.5.0
@@ -66,24 +66,14 @@ repos:
     - id: forbid-new-submodules
     - id: mixed-line-ending
     - id: trailing-whitespace
-
-- repo: https://github.com/regebro/pyroma
-  rev: "4.2"
-  hooks:
-  - id: pyroma
-    args: ["-d", "--min=10", "."]
-    additional_dependencies:
-    - numpy
-    - cython
-
-- repo: https://github.com/mgedmin/check-manifest
-  rev: "0.49"
-  hooks:
-  - id: check-manifest
-    args: ["--ignore=.nox,build", "--no-build-isolation"]
-    additional_dependencies:
-    - numpy
-    - cython
+    - id: name-tests-test
+    - id: file-contents-sorter
+      files: |
+        (?x)^(
+          .*requirements(-\w+)?.(in|txt)|
+          requirements/.*\.txt|
+          .gitignore
+        )
 
 - repo: https://github.com/PyCQA/pydocstyle
   rev: 6.3.0
@@ -99,4 +89,6 @@ repos:
   rev: v1.8.0
   hooks:
   - id: mypy
+    language_version: python3.12
     additional_dependencies: [types-all]
+    files: src/.*\.py$

README.md

@@ -0,0 +1,56 @@
+# BMI for Python
+
+Python bindings for the CSDMS [Basic Model Interface](https://bmi.readthedocs.io).
+
+![[Python][pypi-link]][python-badge]
+![[DOI][doi-link]][doi-badge]
+![[Build Status][build-link]][build-badge]
+![[PyPI][pypi-link]][pypi-badge]
+![[Build Status][anaconda-link]][anaconda-badge]
+
+[anaconda-badge]: https://anaconda.org/conda-forge/bmipy/badges/version.svg
+[anaconda-link]: https://anaconda.org/conda-forge/bmipy
+[build-badge]: https://github.com/csdms/bmi-python/actions/workflows/test.yml/badge.svg
+[build-link]: https://github.com/csdms/bmi-python/actions/workflows/test.yml
+[doi-badge]: https://zenodo.org/badge/179283861.svg
+[doi-link]: https://zenodo.org/badge/latestdoi/179283861
+[pypi-badge]: https://badge.fury.io/py/bmipy.svg
+[pypi-link]: https://pypi.org/project/bmipy/
+[python-badge]: https://img.shields.io/pypi/pyversions/bmipy.svg
+
+## Install
+
+Install *bmipy* with *pip*,
+
+```bash
+pip install bmipy
+```
+
+If you're using Anaconda, you can also install *bmipy*
+with conda from the *conda-forge* channel,
+
+```bash
+conda install bmipy -c conda-forge
+```
+
+To build and install *bmipy* from source,
+
+```bash
+pip install git+https://github.com/csdms/bmi-python.git
+```
+
+## Usage
+
+```python
+from bmipy import Bmi
+
+
+class MyBmi(Bmi):
+
+    def initialize(self, config_file):
+        # Your implementation goes here
+```
+
+A complete sample implementation is given in the
+<https://github.com/csdms/bmi-example-python>
+repository.

noxfile.py

@@ -1,3 +1,5 @@
+from __future__ import annotations
+
 import os
 import pathlib
 import shutil