mimic-utils 1.0.0__tar.gz

mimic_utils-1.0.0/.gitignore

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+# Byte-compiled / optimized / DLL files
+__pycache__/
+*.py[cod]
+
+# C extensions
+*.so
+
+# Distribution / packaging
+.Python
+env/
+build/
+develop-eggs/
+dist/
+downloads/
+eggs/
+.eggs/
+lib/
+lib64/
+parts/
+sdist/
+var/
+*.egg-info/
+.installed.cfg
+*.egg
+
+# 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
+
+# Translations
+*.mo
+*.pot
+
+# Django stuff:
+*.log
+
+# Sphinx documentation
+docs/_build/
+
+# PyBuilder
+target/
+
+# OSX .DS_Store
+.DS_Store
+
+# PyCharm / JetBrains
+.idea

mimic_utils-1.0.0/LICENSE

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+MIT License
+
+Copyright (c) 2019 MIT Laboratory for Computational Physiology
+
+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.

mimic_utils-1.0.0/PKG-INFO

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+Metadata-Version: 2.1
+Name: mimic_utils
+Version: 1.0.0
+Summary: Utilities to support building and analyzing the MIMIC database(s)
+Project-URL: Homepage, https://github.com/MIT-LCP/mimic-code
+Project-URL: Bug Tracker, https://github.com/MIT-LCP/mimic-code/issues
+Author-email: Alistair Johnson <aewj@mit.edu>
+License: MIT License
+        
+        Copyright (c) 2019 MIT Laboratory for Computational Physiology
+        
+        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
+Classifier: License :: OSI Approved :: Apache Software License
+Classifier: Operating System :: OS Independent
+Classifier: Programming Language :: Python :: 3
+Requires-Python: >=3.8
+Requires-Dist: numpy
+Requires-Dist: pandas
+Requires-Dist: sqlglot
+Description-Content-Type: text/markdown
+
+# mimic_utils package
+
+This package contains utilities for working with the MIMIC datasets.

mimic_utils-1.0.0/README_mimic_utils.md

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+# mimic_utils package
+
+This package contains utilities for working with the MIMIC datasets.

mimic_utils-1.0.0/pyproject.toml

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+[build-system]
+requires = ["hatchling"]
+build-backend = "hatchling.build"
+
+[project]
+name = "mimic_utils"
+version = "1.0.0"
+authors = [
+  { name="Alistair Johnson", email="aewj@mit.edu" },
+]
+description = "Utilities to support building and analyzing the MIMIC database(s)"
+readme = "README_mimic_utils.md"
+license = { file="LICENSE" }
+requires-python = ">=3.8"
+classifiers = [
+    "Programming Language :: Python :: 3",
+    "License :: OSI Approved :: Apache Software License",
+    "Operating System :: OS Independent",
+]
+dependencies = [
+    "sqlglot",
+    "pandas",
+    "numpy",
+]
+
+[project.scripts]
+mimic_utils = "mimic_utils.__main__:main"
+
+[project.urls]
+"Homepage" = "https://github.com/MIT-LCP/mimic-code"
+"Bug Tracker" = "https://github.com/MIT-LCP/mimic-code/issues"
+
+[tool.hatch.build.targets.sdist]
+ignore-vcs = true
+only-include = ["src/mimic_utils"]
+
+[tool.hatch.build.targets.wheel]
+packages = ["src/mimic_utils"]

mimic_utils-1.0.0/src/mimic_utils/__main__.py

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+from argparse import ArgumentParser
+
+from mimic_utils.transpile import transpile_file, transpile_folder
+
+def main():
+    parser = ArgumentParser(description="Convert SQL to different dialects.")
+    subparsers = parser.add_subparsers()
+
+    file_parser = subparsers.add_parser('convert_file', help='Transpile a single SQL file.')
+    file_parser.add_argument("source_file", help="Source file.")
+    file_parser.add_argument("destination_file", help="Destination file.")
+    file_parser.add_argument("--source_dialect", choices=["bigquery", "postgres", "duckdb"], default='bigquery', help="SQL dialect to transpile.")
+    file_parser.add_argument("--destination_dialect", choices=["postgres", "duckdb"], default='postgres', help="SQL dialect to transpile.")
+    file_parser.set_defaults(func=transpile_file)
+    
+    folder_parser = subparsers.add_parser('convert_folder', help='Transpile all SQL files in a folder.')
+    folder_parser.add_argument("source_folder", help="Source folder.")
+    folder_parser.add_argument("destination_folder", help="Destination folder.")
+    folder_parser.add_argument("--source_dialect", choices=["bigquery", "postgres", "duckdb"], default='bigquery', help="SQL dialect to transpile.")
+    folder_parser.add_argument("--destination_dialect", choices=["bigquery", "postgres", "duckdb"], default="postgres", help="SQL dialect to transpile.")
+    folder_parser.set_defaults(func=transpile_folder)
+
+    args = parser.parse_args()
+    # pop func from args
+    args = vars(args)
+    func = args.pop("func")
+    func(**args)
+
+
+if __name__ == '__main__':
+    main()

mimic_utils-1.0.0/src/mimic_utils/_version.py

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+# file generated by setuptools_scm
+# don't change, don't track in version control
+TYPE_CHECKING = False
+if TYPE_CHECKING:
+    from typing import Tuple, Union
+    VERSION_TUPLE = Tuple[Union[int, str], ...]
+else:
+    VERSION_TUPLE = object
+
+version: str
+__version__: str
+__version_tuple__: VERSION_TUPLE
+version_tuple: VERSION_TUPLE
+
+__version__ = version = '2.4.1.dev119+g9b083be.d20240106'
+__version_tuple__ = version_tuple = (2, 4, 1, 'dev119', 'g9b083be.d20240106')

mimic_utils-1.0.0/src/mimic_utils/mimic_utils.egg-info/PKG-INFO

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+Metadata-Version: 2.1
+Name: mimic_utils
+Version: 1.0.0
+Summary: Utilities to support building and analyzing the MIMIC database(s)
+Author-email: Alistair Johnson <aewj@mit.edu>
+License: MIT License
+        
+        Copyright (c) 2019 MIT Laboratory for Computational Physiology
+        
+        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.
+        
+Project-URL: Homepage, https://github.com/MIT-LCP/mimic-code
+Project-URL: Bug Tracker, https://github.com/MIT-LCP/mimic-code/issues
+Classifier: Programming Language :: Python :: 3
+Classifier: License :: OSI Approved :: Apache Software License
+Classifier: Operating System :: OS Independent
+Requires-Python: >=3.8
+License-File: LICENSE
+Requires-Dist: sqlglot
+Requires-Dist: pandas
+Requires-Dist: numpy