akanz1 · akanz1 · Dec 26, 2021 · Dec 26, 2021 · Dec 26, 2021 · Dec 26, 2021
diff --git a/.coverage b/.coverage
diff --git a/.coveragerc b/.coveragerc
diff --git a/.deepsource.toml b/.deepsource.toml
@@ -1,10 +1,10 @@
 version = 1
 
-test_patterns = ["klib/tests/**"]
+test_patterns = ["tests/**"]
 
 [[analyzers]]
 name = "python"
 enabled = true
 
-  [analyzers.meta]
-  runtime_version = "3.x.x"
+[analyzers.meta]
+runtime_version = "3.x.x"
diff --git a/.github/workflows/pythonpackage.yml b/.github/workflows/pythonpackage.yml
@@ -1,7 +1,7 @@
 # This workflow will install Python dependencies, run tests and lint with a variety of Python versions
 # For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions
 
-name: Flake8 🐍 PyTest   ´
+name: pylint 🐍 pytest   ´
 
 on:
   push:
@@ -13,7 +13,7 @@ jobs:
   build:
     strategy:
       matrix:
-        python-version: [3.7, 3.8, 3.9, "3.10"]
+        python-version: [3.7, 3.8, 3.9] # , "3.10"
         platform: [ubuntu-latest, macos-latest, windows-latest]
 
     runs-on: ${{ matrix.platform }}
@@ -27,26 +27,17 @@ jobs:
       - name: Install dependencies
         run: |
           python -m pip install --upgrade pip
-          pip install -r requirements.txt
+          python -m pip install poetry
+          poetry config virtualenvs.in-project true
+          poetry install -v
 
-      - name: Lint with flake8
+      - name: Lint with pylint
         run: |
-          pip install flake8
-          # stop the build if there are Python syntax errors or undefined names
-          flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
-          # exit-zero treats all errors as warnings.
-          flake8 . --count --exit-zero --max-complexity=10 --max-line-length=90 --statistics
+          poetry run pylint src/
 
       - name: Test with pytest and generate coverage report
         run: |
-          pip install pytest
-          pytest
-
-      - name: Codecov
-        run: |
-          pip install coverage
-          coverage run -m unittest discover
-          coverage report
+          poetry run pytest
 
       - name: Upload coverage to Codecov
-        uses: codecov/codecov-action@v1
+        uses: codecov/codecov-action@v2
diff --git a/.github/workflows/pythonpublish.yml b/.github/workflows/pythonpublish.yml
@@ -17,16 +17,17 @@ jobs:
       - name: Set up latest Python Version
         uses: actions/setup-python@v1
         with:
-          python-version: "3.x"
-      - name: Install dependencies (incl. packages and setuptools ...)
+          python-version: "3.9.*"
+      - name: Install Poetry and dependencies
         run: |
           python -m pip install --upgrade pip
-          pip install setuptools wheel twine
-          pip install -r requirements.txt
+          python -m pip install poetry
+          poetry config virtualenvs.in-project true
+          poetry install -v
       - name: Build and publish 📦 to PyPI
         env:
-          TWINE_USERNAME: ${{ secrets.PYPI_USERNAME }}
-          TWINE_PASSWORD: ${{ secrets.PYPI_PASSWORD }}
+          PUBLISH_TOKEN: ${{ secrets.POETRY_PUBLISH_TOKEN }}
         run: |
-          python setup.py sdist bdist_wheel
-          twine upload dist/*
+          source .venv/bin/activate
+          poetry config pypi-token.pypi $PUBLISH_TOKEN
+          poetry publish --build
diff --git a/.gitignore b/.gitignore
@@ -1,18 +1,129 @@
-# Folders and files
+# Byte-compiled / optimized / DLL files
 __pycache__/
-.pytest_cache
-.ipynb_checkpoints
-.vscode/
-/build/
-/dist/
-/misc/
-*.code-workspace
+*.py[cod]
+*$py.class
+
+# C extensions
+*.so
+
+# Distribution / packaging
+.Python
+build/
+develop-eggs/
+dist/
+downloads/
+eggs/
+.eggs/
+lib/
+lib64/
+parts/
+sdist/
+var/
+wheels/
+share/python-wheels/
 *.egg-info/
-*.zip
-/klib/scripts/*.png
+.installed.cfg
+*.egg
+MANIFEST
+
+# Unit test / coverage reports
+htmlcov/
+.tox/
+.nox/
+.coverage
+.coverage.*
+.cache
+nosetests.xml
+coverage.xml
+*.cover
+*.py,cover
+.hypothesis/
+.pytest_cache/
+cover/
+/tests/reports
 
-# Sphinx
-docs/build/
+# Sphinx documentation
+docs/_build/
 docs/source/_build
 docs/source/_static
 docs/source/_templates
+
+# Jupyter Notebook
+.ipynb_checkpoints
+
+# IPython
+profile_default/
+ipython_config.py
+
+# pyenv
+#   For a library or package, you might want to ignore these files since the code is
+#   intended to run in multiple environments; otherwise, check them in:
+# .python-version
+
+# pipenv
+#   According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control.
+#   However, in case of collaboration, if having platform-specific dependencies or dependencies
+#   having no cross-platform support, pipenv may install dependencies that don't work, or not
+#   install all needed dependencies.
+#Pipfile.lock
+
+# poetry
+#   Similar to Pipfile.lock, it is generally recommended to include poetry.lock in version control.
+#   This is especially recommended for binary packages to ensure reproducibility, and is more
+#   commonly ignored for libraries.
+#   https://python-poetry.org/docs/basic-usage/#commit-your-poetrylock-file-to-version-control
+#poetry.lock
+
+# PEP 582; used by e.g. github.com/David-OConnor/pyflow
+__pypackages__/
+
+# Celery stuff
+celerybeat-schedule
+celerybeat.pid
+
+# SageMath parsed files
+*.sage.py
+
+# Environments
+.env
+.venv
+env/
+venv/
+ENV/
+env.bak/
+venv.bak/
+
+# Spyder project settings
+.spyderproject
+.spyproject
+
+# Rope project settings
+.ropeproject
+
+# mkdocs documentation
+/site
+
+# mypy
+.mypy_cache/
+.dmypy.json
+dmypy.json
+
+# Pyre type checker
+.pyre/
+
+# pytype static type analyzer
+.pytype/
+
+# Cython debug symbols
+cython_debug/
+
+# PyCharm
+#  JetBrains specific template is maintainted in a separate JetBrains.gitignore that can
+#  be found at https://github.com/github/gitignore/blob/main/Global/JetBrains.gitignore
+#  and can be added to the global gitignore or merged into this file.  For a more nuclear
+#  option (not recommended) you can uncomment the following to ignore the entire idea folder.
+#.idea/
+
+
+/misc/
+.vscode/
diff --git a/.isort.cfg b/.isort.cfg
diff --git a/docs/source/conf.py b/docs/source/conf.py
@@ -13,7 +13,7 @@
 import os
 import sys
 
-from klib._version import __version__
+# from klib._version import __version__
 
 sys.path.insert(0, os.path.abspath("."))
 
@@ -24,7 +24,7 @@
 author = "Andreas Kanz"
 
 # The full version, including alpha/beta/rc tags
-release = __version__
+# release = __version__
 
 
 # -- General configuration ---------------------------------------------------

diff --git a/examples/klib_data_cleaning.ipynb b/examples/klib_data_cleaning.ipynb
diff --git a/klib/_version.py b/klib/_version.py