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feat: add a Scala wrapper and 2 more tools
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‎.github/img/cover.jpg‎

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‎.github/workflows/publish_tp53.yml‎

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jobs:
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on-main-branch-check:
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runs-on: ubuntu-latest
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defaults:
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run:
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working-directory: python
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outputs:
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on_main: ${{ steps.contains_tag.outputs.retval }}
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steps:
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reference: "main"
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tag: "${{ github.ref_name }}"
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tests:
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name: tests
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python-tests:
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name: python-tests
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needs: on-main-branch-check
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if: ${{ needs.on-main-branch-check.outputs.on_main == 'true' }}
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uses: "./.github/workflows/tests.yml"
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uses: "./.github/workflows/tests_python.yml"
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scala-tests:
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name: scala-tests
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needs: on-main-branch-check
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if: ${{ needs.on-main-branch-check.outputs.on_main == 'true' }}
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uses: "./.github/workflows/tests_scala.yml"
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build-wheels:
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name: build wheels
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needs: tests
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needs: python-tests
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uses: "./.github/workflows/wheels.yml"
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build-sdist:
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name: build source distribution
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needs: tests
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needs: python-tests
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runs-on: ubuntu-latest
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steps:
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- uses: actions/checkout@v4
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- name: Configure poetry
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shell: bash
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run: poetry config virtualenvs.in-project true
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run: poetry config virtualenvs.in-project true --directory python
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- name: Install dependencies
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run: poetry install --no-interaction --no-root --without=dev
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run: poetry install --no-interaction --no-root --without=dev --directory python
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- name: Install project
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run: poetry install --no-interaction --without=dev
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run: poetry install --no-interaction --without=dev --directory python
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- name: Build package
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run: poetry build --format=sdist
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run: poetry build --format=sdist --directory python
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- uses: actions/upload-artifact@v4
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with:

.github/workflows/tests.yml renamed to .github/workflows/tests_python.yml

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name: unit tests
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name: python tests
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on:
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push:
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jobs:
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Tests:
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runs-on: ubuntu-latest
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defaults:
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run:
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working-directory: python
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strategy:
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matrix:
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PYTHON_VERSION: ["3.11", "3.12", "3.13"]

‎.github/workflows/tests_scala.yml‎

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name: scala tests
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on:
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push:
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branches:
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- "**"
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tags:
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- "!**"
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workflow_call:
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jobs:
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Tests:
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runs-on: ubuntu-latest
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defaults:
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run:
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working-directory: scala
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strategy:
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matrix:
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suite: [ seshat ]
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java-version: [ 11, 17, 21 ]
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steps:
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- uses: actions/checkout@v4
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- uses: actions/setup-java@v4
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with:
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distribution: 'temurin'
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java-version: ${{ matrix.java-version }}
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- name: Cache for Scala Dependencies
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uses: actions/cache@v4
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with:
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path: |
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~/.mill/download
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~/.m2/repository
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~/.cache/coursier
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key: ${{ runner.os }}-java-mill-${{ matrix.java-version }}-${{ hashFiles('**/build.sc') }}
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restore-keys: ${{ runner.os }}-java-mill-
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- name: Compile Scala Code
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run: |
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./mill --no-server clean
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./mill --no-server --disable-ticker ${{ matrix.suite }}.compile
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- name: Test Scala Code
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run: |
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./mill --no-server --disable-ticker ${{ matrix.suite }}.test
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- name: Create Code Coverage Report
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if: matrix.java-version == '11'
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run: |
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./mill --no-server --disable-ticker ${{ matrix.suite }}.scoverage.htmlReport
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- name: Upload Code Coverage Report
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uses: actions/upload-artifact@v4
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if: matrix.java-version == '11'
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with:
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name: code-coverage
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path: out/seshat/scoverage/htmlReport.dest/

‎.github/workflows/wheels.yml‎

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build-wheels:
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name: Build wheels for ${{ matrix.python }}
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runs-on: ubuntu-latest
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defaults:
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run:
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working-directory: python
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strategy:
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matrix:
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python: ["3.11", "3.12", "3.13"]
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python-version: ${{ matrix.python }}
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- name: Build wheels
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run: pip wheel --no-deps -w wheelhouse .
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run: pip wheel --no-deps -w /tmp/wheelhouse .
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- name: Upload wheels
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uses: actions/upload-artifact@v4
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with:
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name: tp53-wheels-${{ matrix.python }}
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path: ./wheelhouse/tp53*.whl
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path: /tmp/wheelhouse/tp53*.whl
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if-no-files-found: error

‎.gitignore‎

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.DS_Store
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.metals/
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.vscode/
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testdata/
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# Byte-compiled / optimized / DLL files
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__pycache__/
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*.py[cod]
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*$py.class
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# C extensions
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*.so
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# Distribution / packaging
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.Python
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build/
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develop-eggs/
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dist/
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downloads/
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eggs/
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.eggs/
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lib64/
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parts/
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sdist/
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var/
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wheels/
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share/python-wheels/
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*.egg-info/
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.installed.cfg
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*.egg
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MANIFEST
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# PyInstaller
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# Usually these files are written by a python script from a template
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# before PyInstaller builds the exe, so as to inject date/other infos into it.
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*.manifest
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*.spec
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# Installer logs
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pip-log.txt
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pip-delete-this-directory.txt
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# Unit test / coverage reports
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htmlcov/
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.tox/
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.nox/
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.coverage
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.coverage.*
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.cache
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nosetests.xml
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coverage.xml
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*.cover
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*.py,cover
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.hypothesis/
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.pytest_cache/
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cover/
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# Translations
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*.mo
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*.pot
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# Django stuff:
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*.log
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local_settings.py
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db.sqlite3
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db.sqlite3-journal
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# Flask stuff:
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instance/
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.webassets-cache
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# Scrapy stuff:
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.scrapy
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# Sphinx documentation
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docs/_build/
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# PyBuilder
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.pybuilder/
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target/
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# Jupyter Notebook
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.ipynb_checkpoints
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# IPython
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profile_default/
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ipython_config.py
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# pyenv
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# For a library or package, you might want to ignore these files since the code is
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# intended to run in multiple environments; otherwise, check them in:
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# .python-version
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# pipenv
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# According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control.
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# However, in case of collaboration, if having platform-specific dependencies or dependencies
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# having no cross-platform support, pipenv may install dependencies that don't work, or not
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# install all needed dependencies.
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#Pipfile.lock
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# poetry
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# Similar to Pipfile.lock, it is generally recommended to include poetry.lock in version control.
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# This is especially recommended for binary packages to ensure reproducibility, and is more
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# commonly ignored for libraries.
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# https://python-poetry.org/docs/basic-usage/#commit-your-poetrylock-file-to-version-control
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#poetry.lock
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# pdm
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# Similar to Pipfile.lock, it is generally recommended to include pdm.lock in version control.
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#pdm.lock
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# pdm stores project-wide configurations in .pdm.toml, but it is recommended to not include it
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# in version control.
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# https://pdm.fming.dev/#use-with-ide
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.pdm.toml
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# PEP 582; used by e.g. github.com/David-OConnor/pyflow and github.com/pdm-project/pdm
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__pypackages__/
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# Celery stuff
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celerybeat-schedule
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celerybeat.pid
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# SageMath parsed files
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*.sage.py
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# Environments
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.env
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.venv
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venv/
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env.bak/
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venv.bak/
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# Spyder project settings
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.spyderproject
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.spyproject
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# Rope project settings
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.ropeproject
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# mkdocs documentation
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/site
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# mypy
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.mypy_cache/
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.dmypy.json
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dmypy.json
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# Pyre type checker
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.pyre/
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# pytype static type analyzer
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.pytype/
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# Cython debug symbols
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cython_debug/
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# PyCharm
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# JetBrains specific template is maintained in a separate JetBrains.gitignore that can
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# be found at https://github.com/github/gitignore/blob/main/Global/JetBrains.gitignore
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# and can be added to the global gitignore or merged into this file. For a more nuclear
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# option (not recommended) you can uncomment the following to ignore the entire idea folder.
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.idea/

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