isolens 0.1.0__tar.gz

isolens-0.1.0/.gitignore

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+# Byte-compiled / optimized / DLL files
+__pycache__/
+*.py[codz]
+*$py.class
+
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+#  before PyInstaller builds the exe, so as to inject date/other infos into it.
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+# pyenv
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+#  option (not recommended) you can uncomment the following to ignore the entire idea folder.
+#.idea/
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+# Abstra is an AI-powered process automation framework.
+# Ignore directories containing user credentials, local state, and settings.
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+# Visual Studio Code
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+#  you could uncomment the following to ignore the entire vscode folder
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+marimo/_lsp/
+__marimo__/

isolens-0.1.0/CHANGELOG.md

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+# Changelog
+
+All notable changes to this project will be documented in this file.
+
+The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.1.0/),
+and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
+
+## [Unreleased]
+
+## [0.1.0] - 2026-04-10
+
+### Added
+
+- Initial package skeleton following modern Python packaging standards (PEP 517/518/621).
+- `src/` layout with `epitk` package.
+- `py.typed` marker for PEP 561 compliance.
+- `pyproject.toml` with `hatchling` build backend.
+- CI workflow for testing and publishing to PyPI.
+
+[Unreleased]: https://github.com/mt1022/isolens/compare/v0.1.0...HEAD
+[0.1.0]: https://github.com/mt1022/isolens/releases/tag/v0.1.0

isolens-0.1.0/LICENSE

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+MIT License
+
+Copyright (c) 2026 Hong Zhang
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in all
+copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", "WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+SOFTWARE.

isolens-0.1.0/PKG-INFO

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+Metadata-Version: 2.4
+Name: isolens
+Version: 0.1.0
+Summary: Long-Read Kit
+Project-URL: Homepage, https://github.com/mt1022/isolens
+Project-URL: Repository, https://github.com/mt1022/isolens
+Project-URL: Bug Tracker, https://github.com/mt1022/isolens/issues
+Project-URL: Changelog, https://github.com/mt1022/isolens/blob/main/CHANGELOG.md
+Author: Hong Zhang
+License: MIT License
+        
+        Copyright (c) 2026 Hong Zhang
+        
+        Permission is hereby granted, free of charge, to any person obtaining a copy
+        of this software and associated documentation files (the "Software"), to deal
+        in the Software without restriction, including without limitation the rights
+        to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+        copies of the Software, and to permit persons to whom the Software is
+        furnished to do so, subject to the following conditions:
+        
+        The above copyright notice and this permission notice shall be included in all
+        copies or substantial portions of the Software.
+        
+        THE SOFTWARE IS PROVIDED "AS IS", "WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+        IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+        FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+        AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+        LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+        OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+        SOFTWARE.
+License-File: LICENSE
+Keywords: bioinformatics,genomics,long-read,sequencing
+Classifier: Development Status :: 3 - Alpha
+Classifier: Intended Audience :: Science/Research
+Classifier: License :: OSI Approved :: MIT License
+Classifier: Operating System :: OS Independent
+Classifier: Programming Language :: Python :: 3
+Classifier: Programming Language :: Python :: 3.10
+Classifier: Programming Language :: Python :: 3.11
+Classifier: Programming Language :: Python :: 3.12
+Classifier: Programming Language :: Python :: 3.13
+Classifier: Programming Language :: Python :: 3.14
+Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
+Classifier: Typing :: Typed
+Requires-Python: >=3.10
+Provides-Extra: dev
+Requires-Dist: pytest-cov>=5.0; extra == 'dev'
+Requires-Dist: pytest>=8.0; extra == 'dev'
+Requires-Dist: ruff>=0.9; extra == 'dev'
+Description-Content-Type: text/markdown
+
+# isolens
+
+**Long-Read Kit** — a Python toolkit for analysis of long-read sequencing data.
+
+[![PyPI - Version](https://img.shields.io/pypi/v/isolens)](https://pypi.org/project/isolens/)
+[![PyPI - Python Version](https://img.shields.io/pypi/pyversions/isolens)](https://pypi.org/project/isolens/)
+[![License: MIT](https://img.shields.io/badge/License-MIT-yellow.svg)](LICENSE)
+[![CI](https://github.com/mt1022/isolens/actions/workflows/ci.yml/badge.svg)](https://github.com/mt1022/isolens/actions/workflows/ci.yml)
+
+## Installation
+
+```bash
+pip install isolens
+```
+
+## Usage
+
+```python
+import isolens
+
+print(isolens.__version__)
+```
+
+## Development
+
+Clone the repository and install in editable mode with the development extras:
+
+```bash
+git clone https://github.com/mt1022/isolens.git
+cd isolens
+pip install -e ".[dev]"
+```
+
+Run the test suite:
+
+```bash
+pytest
+```
+
+## Contributing
+
+Contributions are welcome! Please open an issue or pull request on
+[GitHub](https://github.com/mt1022/isolens).
+
+## License
+
+Distributed under the [MIT License](LICENSE).

isolens-0.1.0/README.md

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+# isolens
+
+**Long-Read Kit** — a Python toolkit for analysis of long-read sequencing data.
+
+[![PyPI - Version](https://img.shields.io/pypi/v/isolens)](https://pypi.org/project/isolens/)
+[![PyPI - Python Version](https://img.shields.io/pypi/pyversions/isolens)](https://pypi.org/project/isolens/)
+[![License: MIT](https://img.shields.io/badge/License-MIT-yellow.svg)](LICENSE)
+[![CI](https://github.com/mt1022/isolens/actions/workflows/ci.yml/badge.svg)](https://github.com/mt1022/isolens/actions/workflows/ci.yml)
+
+## Installation
+
+```bash
+pip install isolens
+```
+
+## Usage
+
+```python
+import isolens
+
+print(isolens.__version__)
+```
+
+## Development
+
+Clone the repository and install in editable mode with the development extras:
+
+```bash
+git clone https://github.com/mt1022/isolens.git
+cd isolens
+pip install -e ".[dev]"
+```
+
+Run the test suite:
+
+```bash
+pytest
+```
+
+## Contributing
+
+Contributions are welcome! Please open an issue or pull request on
+[GitHub](https://github.com/mt1022/isolens).
+
+## License
+
+Distributed under the [MIT License](LICENSE).

isolens-0.1.0/pyproject.toml

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+[build-system]
+requires = ["hatchling"]
+build-backend = "hatchling.build"
+
+[project]
+name = "isolens"
+version = "0.1.0"
+description = "Long-Read Kit"
+readme = "README.md"
+license = { file = "LICENSE" }
+authors = [{ name = "Hong Zhang" }]
+requires-python = ">=3.10"
+classifiers = [
+    "Development Status :: 3 - Alpha",
+    "Intended Audience :: Science/Research",
+    "License :: OSI Approved :: MIT License",
+    "Operating System :: OS Independent",
+    "Programming Language :: Python :: 3",
+    "Programming Language :: Python :: 3.10",
+    "Programming Language :: Python :: 3.11",
+    "Programming Language :: Python :: 3.12",
+    "Programming Language :: Python :: 3.13",
+    "Programming Language :: Python :: 3.14",
+    "Topic :: Scientific/Engineering :: Bio-Informatics",
+    "Typing :: Typed",
+]
+keywords = ["long-read", "bioinformatics", "sequencing", "genomics"]
+dependencies = []
+
+[project.urls]
+Homepage = "https://github.com/mt1022/isolens"
+Repository = "https://github.com/mt1022/isolens"
+"Bug Tracker" = "https://github.com/mt1022/isolens/issues"
+Changelog = "https://github.com/mt1022/isolens/blob/main/CHANGELOG.md"
+
+[project.optional-dependencies]
+dev = [
+    "pytest>=8.0",
+    "pytest-cov>=5.0",
+    "ruff>=0.9",
+]
+
+[tool.hatch.build.targets.sdist]
+include = ["/src", "/tests", "/CHANGELOG.md"]
+
+[tool.hatch.build.targets.wheel]
+packages = ["src/isolens"]
+
+[tool.pytest.ini_options]
+testpaths = ["tests"]
+addopts = ["-v", "--tb=short"]
+
+[tool.ruff]
+src = ["src"]
+line-length = 88
+target-version = "py310"
+
+[tool.ruff.lint]
+select = ["E", "F", "I", "UP"]
+
+[tool.coverage.run]
+source = ["isolens"]
+branch = true
+
+[tool.coverage.report]
+show_missing = true

isolens-0.1.0/src/isolens/__init__.py

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+"""Long-Read Kit (isolens).
+
+A toolkit for analysis of long-read sequencing data.
+"""
+
+__version__ = "0.1.0"

isolens-0.1.0/tests/test_isolens.py

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+"""Tests for isolens package."""
+
+import isolens
+
+
+def test_version():
+    """Package exposes a __version__ string."""
+    assert isinstance(isolens.__version__, str)
+    assert isolens.__version__ != ""
+
+
+def test_version_format():
+    """Version follows basic semver format (MAJOR.MINOR.PATCH)."""
+    parts = isolens.__version__.split(".")
+    assert len(parts) == 3
+    assert all(part.isdigit() for part in parts)