csrlite 0.2.0__tar.gz → 0.2.1__tar.gz

{csrlite-0.2.0 → csrlite-0.2.1}/MANIFEST.in

@@ -1,30 +1,30 @@
-# Include important files
-include README.md
-include pyproject.toml
-
-# Include source code
-recursive-include src *.py *.yaml *.yml
-
-# Exclude everything else
-global-exclude *.pyc
-global-exclude *.pyo
-global-exclude *.pyd
-global-exclude __pycache__
-global-exclude .DS_Store
-
-# Exclude development, testing, and documentation files
-prune tests
-prune docs
-prune data
-prune studies
-prune .github
-prune scripts
-exclude .gitignore
-exclude .pyre_configuration
-exclude _quarto.yml
-exclude custom.scss
-exclude index.qmd
-exclude agents.md
-exclude CLAUDE.md
-exclude requirements.txt
-exclude uv.lock
+# Include important files
+include README.md
+include pyproject.toml
+
+# Include source code
+recursive-include src *.py *.yaml *.yml
+
+# Exclude everything else
+global-exclude *.pyc
+global-exclude *.pyo
+global-exclude *.pyd
+global-exclude __pycache__
+global-exclude .DS_Store
+
+# Exclude development, testing, and documentation files
+prune tests
+prune docs
+prune data
+prune studies
+prune .github
+prune scripts
+exclude .gitignore
+exclude .pyre_configuration
+exclude _quarto.yml
+exclude custom.scss
+exclude index.qmd
+exclude agents.md
+exclude CLAUDE.md
+exclude requirements.txt
+exclude uv.lock

{csrlite-0.2.0/src/csrlite.egg-info → csrlite-0.2.1}/PKG-INFO

@@ -1,68 +1,68 @@
-Metadata-Version: 2.4
-Name: csrlite
-Version: 0.2.0
-Summary: A hierarchical YAML-based framework for generating Tables, Listings, and Figures in clinical trials
-Author-email: Clinical Biostatistics Team <biostat@example.com>
-License: MIT
-Project-URL: Homepage, https://github.com/elong0527/csrlite
-Project-URL: Documentation, https://elong0527.github.io/csrlite
-Project-URL: Repository, https://github.com/elong0527/csrlite.git
-Project-URL: Bug Tracker, https://github.com/elong0527/csrlite/issues
-Keywords: clinical-trials,biostatistics,yaml,tlf,tables,listings,figures
-Classifier: Development Status :: 3 - Alpha
-Classifier: Intended Audience :: Science/Research
-Classifier: License :: OSI Approved :: MIT License
-Classifier: Programming Language :: Python :: 3
-Classifier: Programming Language :: Python :: 3.10
-Classifier: Programming Language :: Python :: 3.11
-Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
-Requires-Python: >=3.10
-Description-Content-Type: text/markdown
-Requires-Dist: pydantic>=2.0.0
-Requires-Dist: pyyaml>=6.0
-Requires-Dist: polars>=0.20.0
-Requires-Dist: rtflite>=2.1.1
-Provides-Extra: rtf
-Requires-Dist: rtflite; extra == "rtf"
-Provides-Extra: plotting
-Requires-Dist: matplotlib>=3.5.0; extra == "plotting"
-Requires-Dist: plotly>=5.0.0; extra == "plotting"
-Provides-Extra: dev
-Requires-Dist: pytest-cov>=4.0.0; extra == "dev"
-Requires-Dist: pytest>=9.0.1; extra == "dev"
-Requires-Dist: black>=22.0.0; extra == "dev"
-Requires-Dist: isort>=7.0.0; extra == "dev"
-Requires-Dist: ruff>=0.14.8; extra == "dev"
-Requires-Dist: mypy>=1.19.0; extra == "dev"
-Requires-Dist: quarto>=0.1.0; extra == "dev"
-Requires-Dist: pyre-check>=0.9.18; extra == "dev"
-Requires-Dist: jupyter>=1.1.1; extra == "dev"
-Requires-Dist: jupyter-cache>=1.0.1; extra == "dev"
-Requires-Dist: nbformat>=5.10.4; extra == "dev"
-Provides-Extra: all
-Requires-Dist: rtflite; extra == "all"
-Requires-Dist: matplotlib>=3.5.0; extra == "all"
-Requires-Dist: plotly>=5.0.0; extra == "all"
-
-# csrlite
-
-[![CI](https://github.com/elong0527/csrlite/actions/workflows/ci.yml/badge.svg)](https://github.com/elong0527/csrlite/actions/workflows/ci.yml)
-[![codecov](https://codecov.io/gh/elong0527/csrlite/branch/main/graph/badge.svg)](https://codecov.io/gh/elong0527/csrlite)
-[![PyPI version](https://badge.fury.io/py/csrlite.svg)](https://badge.fury.io/py/csrlite)
-[![Python 3.10+](https://img.shields.io/badge/python-3.10+-blue.svg)](https://www.python.org/downloads/)
-
-A hierarchical YAML-based framework for generating Tables, Listings, and Figures in clinical trials.
-
-## Installation
-
-```bash
-pip install csrlite
-```
-
-## Documentation
-
-Visit [https://elong0527.github.io/csrlite](https://elong0527.github.io/csrlite) for full documentation.
-
-## License
-
-MIT License - see [LICENSE](LICENSE) file for details.
+Metadata-Version: 2.4
+Name: csrlite
+Version: 0.2.1
+Summary: A hierarchical YAML-based framework for generating Tables, Listings, and Figures in clinical trials
+Author-email: Clinical Biostatistics Team <biostat@example.com>, Ming-Chun Chen <hellomingchun@gmail.com>
+License: MIT
+Project-URL: Homepage, https://github.com/elong0527/csrlite
+Project-URL: Documentation, https://elong0527.github.io/csrlite
+Project-URL: Repository, https://github.com/elong0527/csrlite.git
+Project-URL: Bug Tracker, https://github.com/elong0527/csrlite/issues
+Keywords: clinical-trials,biostatistics,yaml,tlf,tables,listings,figures
+Classifier: Development Status :: 3 - Alpha
+Classifier: Intended Audience :: Science/Research
+Classifier: License :: OSI Approved :: MIT License
+Classifier: Programming Language :: Python :: 3
+Classifier: Programming Language :: Python :: 3.10
+Classifier: Programming Language :: Python :: 3.11
+Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
+Requires-Python: >=3.10
+Description-Content-Type: text/markdown
+Requires-Dist: pydantic>=2.0.0
+Requires-Dist: pyyaml>=6.0
+Requires-Dist: polars>=0.20.0
+Requires-Dist: rtflite>=2.1.1
+Provides-Extra: rtf
+Requires-Dist: rtflite; extra == "rtf"
+Provides-Extra: plotting
+Requires-Dist: matplotlib>=3.5.0; extra == "plotting"
+Requires-Dist: plotly>=5.0.0; extra == "plotting"
+Provides-Extra: dev
+Requires-Dist: pytest-cov>=4.0.0; extra == "dev"
+Requires-Dist: pytest>=9.0.1; extra == "dev"
+Requires-Dist: black>=22.0.0; extra == "dev"
+Requires-Dist: isort>=7.0.0; extra == "dev"
+Requires-Dist: ruff>=0.14.8; extra == "dev"
+Requires-Dist: mypy>=1.19.0; extra == "dev"
+Requires-Dist: quarto>=0.1.0; extra == "dev"
+Requires-Dist: pyre-check>=0.9.18; extra == "dev"
+Requires-Dist: jupyter>=1.1.1; extra == "dev"
+Requires-Dist: jupyter-cache>=1.0.1; extra == "dev"
+Requires-Dist: nbformat>=5.10.4; extra == "dev"
+Provides-Extra: all
+Requires-Dist: rtflite; extra == "all"
+Requires-Dist: matplotlib>=3.5.0; extra == "all"
+Requires-Dist: plotly>=5.0.0; extra == "all"
+
+# csrlite
+
+[![CI](https://github.com/elong0527/csrlite/actions/workflows/ci.yml/badge.svg)](https://github.com/elong0527/csrlite/actions/workflows/ci.yml)
+[![codecov](https://codecov.io/gh/elong0527/csrlite/branch/main/graph/badge.svg)](https://codecov.io/gh/elong0527/csrlite)
+[![PyPI version](https://badge.fury.io/py/csrlite.svg)](https://badge.fury.io/py/csrlite)
+[![Python 3.10+](https://img.shields.io/badge/python-3.10+-blue.svg)](https://www.python.org/downloads/)
+
+A hierarchical YAML-based framework for generating Tables, Listings, and Figures in clinical trials.
+
+## Installation
+
+```bash
+pip install csrlite
+```
+
+## Documentation
+
+Visit [https://elong0527.github.io/csrlite](https://elong0527.github.io/csrlite) for full documentation.
+
+## License
+
+MIT License - see [LICENSE](LICENSE) file for details.

{csrlite-0.2.0 → csrlite-0.2.1}/README.md

@@ -1,22 +1,22 @@
-# csrlite
-
-[![CI](https://github.com/elong0527/csrlite/actions/workflows/ci.yml/badge.svg)](https://github.com/elong0527/csrlite/actions/workflows/ci.yml)
-[![codecov](https://codecov.io/gh/elong0527/csrlite/branch/main/graph/badge.svg)](https://codecov.io/gh/elong0527/csrlite)
-[![PyPI version](https://badge.fury.io/py/csrlite.svg)](https://badge.fury.io/py/csrlite)
-[![Python 3.10+](https://img.shields.io/badge/python-3.10+-blue.svg)](https://www.python.org/downloads/)
-
-A hierarchical YAML-based framework for generating Tables, Listings, and Figures in clinical trials.
-
-## Installation
-
-```bash
-pip install csrlite
-```
-
-## Documentation
-
-Visit [https://elong0527.github.io/csrlite](https://elong0527.github.io/csrlite) for full documentation.
-
-## License
-
-MIT License - see [LICENSE](LICENSE) file for details.
+# csrlite
+
+[![CI](https://github.com/elong0527/csrlite/actions/workflows/ci.yml/badge.svg)](https://github.com/elong0527/csrlite/actions/workflows/ci.yml)
+[![codecov](https://codecov.io/gh/elong0527/csrlite/branch/main/graph/badge.svg)](https://codecov.io/gh/elong0527/csrlite)
+[![PyPI version](https://badge.fury.io/py/csrlite.svg)](https://badge.fury.io/py/csrlite)
+[![Python 3.10+](https://img.shields.io/badge/python-3.10+-blue.svg)](https://www.python.org/downloads/)
+
+A hierarchical YAML-based framework for generating Tables, Listings, and Figures in clinical trials.
+
+## Installation
+
+```bash
+pip install csrlite
+```
+
+## Documentation
+
+Visit [https://elong0527.github.io/csrlite](https://elong0527.github.io/csrlite) for full documentation.
+
+## License
+
+MIT License - see [LICENSE](LICENSE) file for details.

{csrlite-0.2.0 → csrlite-0.2.1}/pyproject.toml

@@ -1,155 +1,163 @@
-[build-system]
-requires = ["setuptools>=45", "wheel"]
-build-backend = "setuptools.build_meta"
-
-[project]
-name = "csrlite"
-version = "0.2.0"
-description = "A hierarchical YAML-based framework for generating Tables, Listings, and Figures in clinical trials"
-authors = [{name = "Clinical Biostatistics Team", email = "biostat@example.com"}]
-license = {text = "MIT"}
-readme = "README.md"
-requires-python = ">=3.10"
-classifiers = [
-    "Development Status :: 3 - Alpha",
-    "Intended Audience :: Science/Research",
-    "License :: OSI Approved :: MIT License",
-    "Programming Language :: Python :: 3",
-    "Programming Language :: Python :: 3.10",
-    "Programming Language :: Python :: 3.11",
-    "Topic :: Scientific/Engineering :: Bio-Informatics",
-]
-keywords = ["clinical-trials", "biostatistics", "yaml", "tlf", "tables", "listings", "figures"]
-
-dependencies = [
-    "pydantic>=2.0.0",
-    "pyyaml>=6.0",
-    "polars>=0.20.0",
-    "rtflite>=2.1.1",
-]
-
-[project.optional-dependencies]
-rtf = ["rtflite"]
-plotting = ["matplotlib>=3.5.0", "plotly>=5.0.0"]
-dev = [
-    "pytest-cov>=4.0.0",
-    "pytest>=9.0.1",
-    "black>=22.0.0",
-    "isort>=7.0.0",
-    "ruff>=0.14.8",
-    "mypy>=1.19.0",
-    "quarto>=0.1.0",
-    "pyre-check>=0.9.18",
-    "jupyter>=1.1.1",
-    "jupyter-cache>=1.0.1",
-    "nbformat>=5.10.4",
-]
-all = ["rtflite", "matplotlib>=3.5.0", "plotly>=5.0.0"]
-
-[project.urls]
-Homepage = "https://github.com/elong0527/csrlite"
-Documentation = "https://elong0527.github.io/csrlite"
-Repository = "https://github.com/elong0527/csrlite.git"
-"Bug Tracker" = "https://github.com/elong0527/csrlite/issues"
-
-[tool.setuptools.packages.find]
-where = ["src"]
-
-[tool.setuptools.package-data]
-csrlite = ["*.yaml", "*.yml"]
-
-[tool.pytest.ini_options]
-testpaths = ["tests"]
-python_files = ["test_*.py"]
-python_classes = ["Test*"]
-python_functions = ["test_*"]
-addopts = [
-    "--strict-markers",
-    "--strict-config",
-    "--verbose",
-]
-markers = [
-    "slow: marks tests as slow (deselect with '-m \"not slow\"')",
-    "integration: marks tests as integration tests",
-]
-
-[tool.coverage.run]
-source = ["src/csrlite"]
-branch = true
-
-[tool.coverage.report]
-exclude_lines = [
-    "pragma: no cover",
-    "def __repr__",
-    "raise AssertionError",
-    "raise NotImplementedError",
-]
-
-[tool.black]
-line-length = 100
-target-version = ['py38']
-include = '\.pyi?$'
-extend-exclude = '''
-/(
-  # directories
-  \.eggs
-  | \.git
-  | \.hg
-  | \.mypy_cache
-  | \.tox
-  | \.venv
-  | build
-  | dist
-)/
-'''
-
-[tool.isort]
-profile = "black"
-line_length = 100
-known_first_party = ["csrlite"]
-
-[tool.mypy]
-python_version = "3.10"
-warn_return_any = true
-warn_unused_configs = true
-disallow_untyped_defs = true
-disallow_incomplete_defs = true
-check_untyped_defs = true
-disallow_untyped_decorators = true
-no_implicit_optional = true
-warn_redundant_casts = true
-warn_unused_ignores = true
-warn_no_return = true
-warn_unreachable = true
-strict_equality = true
-exclude = ["build/", "tests/"]
-
-[[tool.mypy.overrides]]
-module = [
-    "polars.*",
-    "yaml.*",
-    "rtflite.*",
-    "matplotlib.*",
-    "plotly.*",
-]
-ignore_missing_imports = true
-
-[[tool.mypy.overrides]]
-module = ["tests.*"]
-ignore_errors = true
-
-[tool.ruff]
-line-length = 100
-target-version = "py310"
-
-[tool.ruff.lint]
-select = ["E", "F", "I"]
-ignore = []
-
-[dependency-groups]
-dev = [
-    "jupyter>=1.1.1",
-    "jupyter-cache>=1.0.1",
-    "nbclient>=0.10.2",
-    "notebook>=7.5.0",
-]
+[build-system]
+requires = ["setuptools>=45", "wheel"]
+build-backend = "setuptools.build_meta"
+
+[project]
+name = "csrlite"
+version = "0.2.1"
+description = "A hierarchical YAML-based framework for generating Tables, Listings, and Figures in clinical trials"
+authors = [
+    {name = "Clinical Biostatistics Team", email = "biostat@example.com"},
+    {name = "Ming-Chun Chen", email = "hellomingchun@gmail.com"}
+]
+license = {text = "MIT"}
+readme = "README.md"
+requires-python = ">=3.10"
+classifiers = [
+    "Development Status :: 3 - Alpha",
+    "Intended Audience :: Science/Research",
+    "License :: OSI Approved :: MIT License",
+    "Programming Language :: Python :: 3",
+    "Programming Language :: Python :: 3.10",
+    "Programming Language :: Python :: 3.11",
+    "Topic :: Scientific/Engineering :: Bio-Informatics",
+]
+keywords = ["clinical-trials", "biostatistics", "yaml", "tlf", "tables", "listings", "figures"]
+
+dependencies = [
+    "pydantic>=2.0.0",
+    "pyyaml>=6.0",
+    "polars>=0.20.0",
+    "rtflite>=2.1.1",
+]
+
+[project.optional-dependencies]
+rtf = ["rtflite"]
+plotting = ["matplotlib>=3.5.0", "plotly>=5.0.0"]
+dev = [
+    "pytest-cov>=4.0.0",
+    "pytest>=9.0.1",
+    "black>=22.0.0",
+    "isort>=7.0.0",
+    "ruff>=0.14.8",
+    "mypy>=1.19.0",
+    "quarto>=0.1.0",
+    "pyre-check>=0.9.18",
+    "jupyter>=1.1.1",
+    "jupyter-cache>=1.0.1",
+    "nbformat>=5.10.4",
+]
+all = ["rtflite", "matplotlib>=3.5.0", "plotly>=5.0.0"]
+
+[project.urls]
+Homepage = "https://github.com/elong0527/csrlite"
+Documentation = "https://elong0527.github.io/csrlite"
+Repository = "https://github.com/elong0527/csrlite.git"
+"Bug Tracker" = "https://github.com/elong0527/csrlite/issues"
+
+[tool.setuptools.packages.find]
+where = ["src"]
+
+[tool.setuptools.package-data]
+csrlite = ["*.yaml", "*.yml"]
+
+[tool.pytest.ini_options]
+testpaths = ["tests"]
+python_files = ["test_*.py"]
+python_classes = ["Test*"]
+python_functions = ["test_*"]
+addopts = [
+    "--strict-markers",
+    "--strict-config",
+    "--verbose",
+]
+markers = [
+    "slow: marks tests as slow (deselect with '-m \"not slow\"')",
+    "integration: marks tests as integration tests",
+]
+
+[tool.coverage.run]
+source = ["src/csrlite"]
+branch = true
+
+[tool.coverage.report]
+exclude_lines = [
+    "pragma: no cover",
+    "def __repr__",
+    "raise AssertionError",
+    "raise NotImplementedError",
+]
+
+[tool.black]
+line-length = 100
+target-version = ['py38']
+include = '\.pyi?$'
+extend-exclude = '''
+/(
+  # directories
+  \.eggs
+  | \.git
+  | \.hg
+  | \.mypy_cache
+  | \.tox
+  | \.venv
+  | build
+  | dist
+)/
+'''
+
+[tool.isort]
+profile = "black"
+line_length = 100
+known_first_party = ["csrlite"]
+
+[tool.mypy]
+python_version = "3.10"
+warn_return_any = true
+warn_unused_configs = true
+disallow_untyped_defs = true
+disallow_incomplete_defs = true
+check_untyped_defs = true
+disallow_untyped_decorators = true
+no_implicit_optional = true
+warn_redundant_casts = true
+warn_unused_ignores = true
+warn_no_return = true
+warn_unreachable = true
+strict_equality = true
+exclude = ["build/", "tests/"]
+
+[[tool.mypy.overrides]]
+module = [
+    "polars.*",
+    "yaml.*",
+    "rtflite.*",
+    "matplotlib.*",
+    "plotly.*",
+]
+ignore_missing_imports = true
+
+[[tool.mypy.overrides]]
+module = ["tests.*"]
+ignore_errors = true
+
+[tool.ruff]
+line-length = 100
+target-version = "py310"
+
+[tool.ruff.lint]
+select = ["E", "F", "I"]
+ignore = []
+
+[dependency-groups]
+dev = [
+    "jupyter>=1.1.1",
+    "jupyter-cache>=1.0.1",
+    "mypy>=1.19.0",
+    "nbclient>=0.10.2",
+    "notebook>=7.5.0",
+    "pyre-check>=0.9.25",
+    "pytest>=9.0.2",
+    "pytest-cov>=7.0.0",
+    "ruff>=0.14.8",
+]

{csrlite-0.2.0 → csrlite-0.2.1}/setup.cfg

@@ -1,4 +1,4 @@
-[egg_info]
-tag_build = 
-tag_date = 0
-
+[egg_info]
+tag_build = 
+tag_date = 0
+