pdm.lock

# This file is @generated by PDM.
# It is not intended for manual editing.

[[package]]
name = "aicsimageio"
version = "4.9.4"
requires_python = ">=3.8"
summary = "Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Pure Python"
dependencies = [
    "dask[array]>=2021.4.1",
    "fsspec!=2022.7.0,>=2021.4.0",
    "imagecodecs>=2020.5.30",
    "lxml<5,>=4.6",
    "numpy<2,>=1.16",
    "ome-types>=0.2",
    "resource-backed-dask-array>=0.1.0",
    "tifffile>=2021.8.30",
    "wrapt>=1.12",
    "xarray>=0.16.1",
    "xmlschema",
    "zarr<3,>=2.6",
]

[[package]]
name = "aiobotocore"
version = "2.4.2"
requires_python = ">=3.7"
summary = "Async client for aws services using botocore and aiohttp"
dependencies = [
    "aiohttp>=3.3.1",
    "aioitertools>=0.5.1",
    "botocore<1.27.60,>=1.27.59",
    "wrapt>=1.10.10",
]

[[package]]
name = "aiohttp"
version = "3.8.3"
requires_python = ">=3.6"
summary = "Async http client/server framework (asyncio)"
dependencies = [
    "aiosignal>=1.1.2",
    "async-timeout<5.0,>=4.0.0a3",
    "attrs>=17.3.0",
    "charset-normalizer<3.0,>=2.0",
    "frozenlist>=1.1.1",
    "multidict<7.0,>=4.5",
    "yarl<2.0,>=1.0",
]

[[package]]
name = "aioitertools"
version = "0.11.0"
requires_python = ">=3.6"
summary = "itertools and builtins for AsyncIO and mixed iterables"
dependencies = [
    "typing-extensions>=4.0; python_version < \"3.10\"",
]

[[package]]
name = "aiosignal"
version = "1.3.1"
requires_python = ">=3.7"
summary = "aiosignal: a list of registered asynchronous callbacks"
dependencies = [
    "frozenlist>=1.1.0",
]

[[package]]
name = "alabaster"
version = "0.7.13"
requires_python = ">=3.6"
summary = "A configurable sidebar-enabled Sphinx theme"

[[package]]
name = "alembic"
version = "1.9.2"
requires_python = ">=3.7"
summary = "A database migration tool for SQLAlchemy."
dependencies = [
    "Mako",
    "SQLAlchemy>=1.3.0",
    "importlib-metadata; python_version < \"3.9\"",
    "importlib-resources; python_version < \"3.9\"",
]

[[package]]
name = "anndata"
version = "0.8.0"
requires_python = ">=3.7"
summary = "Annotated data."
dependencies = [
    "h5py>=3",
    "natsort",
    "numpy>=1.16.5",
    "packaging>=20",
    "pandas>=1.1.1",
    "scipy>1.4",
]

[[package]]
name = "antlr4-python3-runtime"
version = "4.9.3"
summary = "ANTLR 4.9.3 runtime for Python 3.7"

[[package]]
name = "asciitree"
version = "0.3.3"
summary = "Draws ASCII trees."

[[package]]
name = "async-timeout"
version = "4.0.2"
requires_python = ">=3.6"
summary = "Timeout context manager for asyncio programs"

[[package]]
name = "attrs"
version = "22.2.0"
requires_python = ">=3.6"
summary = "Classes Without Boilerplate"

[[package]]
name = "babel"
version = "2.11.0"
requires_python = ">=3.6"
summary = "Internationalization utilities"
dependencies = [
    "pytz>=2015.7",
]

[[package]]
name = "beautifulsoup4"
version = "4.11.1"
requires_python = ">=3.6.0"
summary = "Screen-scraping library"
dependencies = [
    "soupsieve>1.2",
]

[[package]]
name = "botocore"
version = "1.27.59"
requires_python = ">= 3.7"
summary = "Low-level, data-driven core of boto 3."
dependencies = [
    "jmespath<2.0.0,>=0.7.1",
    "python-dateutil<3.0.0,>=2.1",
    "urllib3<1.27,>=1.25.4",
]

[[package]]
name = "cachetools"
version = "5.2.1"
requires_python = "~=3.7"
summary = "Extensible memoizing collections and decorators"

[[package]]
name = "certifi"
version = "2022.12.7"
requires_python = ">=3.6"
summary = "Python package for providing Mozilla's CA Bundle."

[[package]]
name = "cfgv"
version = "3.3.1"
requires_python = ">=3.6.1"
summary = "Validate configuration and produce human readable error messages."

[[package]]
name = "chardet"
version = "5.1.0"
requires_python = ">=3.7"
summary = "Universal encoding detector for Python 3"

[[package]]
name = "charset-normalizer"
version = "2.1.1"
requires_python = ">=3.6.0"
summary = "The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet."

[[package]]
name = "click"
version = "8.1.3"
requires_python = ">=3.7"
summary = "Composable command line interface toolkit"
dependencies = [
    "colorama; platform_system == \"Windows\"",
]

[[package]]
name = "cloudpickle"
version = "2.2.1"
requires_python = ">=3.6"
summary = "Extended pickling support for Python objects"

[[package]]
name = "colorama"
version = "0.4.6"
requires_python = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,!=3.6.*,>=2.7"
summary = "Cross-platform colored terminal text."

[[package]]
name = "contourpy"
version = "1.0.7"
requires_python = ">=3.8"
summary = "Python library for calculating contours of 2D quadrilateral grids"
dependencies = [
    "numpy>=1.16",
]

[[package]]
name = "coverage"
version = "7.0.5"
requires_python = ">=3.7"
summary = "Code coverage measurement for Python"

[[package]]
name = "coverage"
version = "7.0.5"
extras = ["toml"]
requires_python = ">=3.7"
summary = "Code coverage measurement for Python"
dependencies = [
    "coverage==7.0.5",
    "tomli; python_full_version <= \"3.11.0a6\"",
]

[[package]]
name = "cycler"
version = "0.11.0"
requires_python = ">=3.6"
summary = "Composable style cycles"

[[package]]
name = "dask"
version = "2023.1.0"
requires_python = ">=3.8"
summary = "Parallel PyData with Task Scheduling"
dependencies = [
    "click>=7.0",
    "cloudpickle>=1.1.1",
    "fsspec>=0.6.0",
    "packaging>=20.0",
    "partd>=0.3.10",
    "pyyaml>=5.3.1",
    "toolz>=0.8.2",
]

[[package]]
name = "dask"
version = "2023.1.0"
extras = ["array"]
requires_python = ">=3.8"
summary = "Parallel PyData with Task Scheduling"
dependencies = [
    "dask==2023.1.0",
    "numpy>=1.18",
]

[[package]]
name = "databricks-cli"
version = "0.17.4"
summary = "A command line interface for Databricks"
dependencies = [
    "click>=7.0",
    "oauthlib>=3.1.0",
    "pyjwt>=1.7.0",
    "requests>=2.17.3",
    "six>=1.10.0",
    "tabulate>=0.7.7",
]

[[package]]
name = "distlib"
version = "0.3.6"
summary = "Distribution utilities"

[[package]]
name = "dnspython"
version = "2.3.0"
requires_python = ">=3.7,<4.0"
summary = "DNS toolkit"

[[package]]
name = "docker"
version = "6.0.1"
requires_python = ">=3.7"
summary = "A Python library for the Docker Engine API."
dependencies = [
    "packaging>=14.0",
    "pywin32>=304; sys_platform == \"win32\"",
    "requests>=2.26.0",
    "urllib3>=1.26.0",
    "websocket-client>=0.32.0",
]

[[package]]
name = "docutils"
version = "0.19"
requires_python = ">=3.7"
summary = "Docutils -- Python Documentation Utilities"

[[package]]
name = "elementpath"
version = "3.0.2"
requires_python = ">=3.7"
summary = "XPath 1.0/2.0/3.0 parsers and selectors for ElementTree and lxml"

[[package]]
name = "email-validator"
version = "1.3.0"
requires_python = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,>=2.7"
summary = "A robust email address syntax and deliverability validation library."
dependencies = [
    "dnspython>=1.15.0",
    "idna>=2.0.0",
]

[[package]]
name = "entrypoints"
version = "0.4"
requires_python = ">=3.6"
summary = "Discover and load entry points from installed packages."

[[package]]
name = "exceptiongroup"
version = "1.1.0"
requires_python = ">=3.7"
summary = "Backport of PEP 654 (exception groups)"

[[package]]
name = "fasteners"
version = "0.18"
requires_python = ">=3.6"
summary = "A python package that provides useful locks"

[[package]]
name = "fastjsonschema"
version = "2.16.2"
summary = "Fastest Python implementation of JSON schema"

[[package]]
name = "filelock"
version = "3.9.0"
requires_python = ">=3.7"
summary = "A platform independent file lock."

[[package]]
name = "fire"
version = "0.5.0"
summary = "A library for automatically generating command line interfaces."
dependencies = [
    "six",
    "termcolor",
]

[[package]]
name = "flask"
version = "2.2.2"
requires_python = ">=3.7"
summary = "A simple framework for building complex web applications."
dependencies = [
    "Jinja2>=3.0",
    "Werkzeug>=2.2.2",
    "click>=8.0",
    "importlib-metadata>=3.6.0; python_version < \"3.10\"",
    "itsdangerous>=2.0",
]

[[package]]
name = "fonttools"
version = "4.38.0"
requires_python = ">=3.7"
summary = "Tools to manipulate font files"

[[package]]
name = "frozendict"
version = "2.3.4"
requires_python = ">=3.6"
summary = "A simple immutable dictionary"

[[package]]
name = "frozenlist"
version = "1.3.3"
requires_python = ">=3.7"
summary = "A list-like structure which implements collections.abc.MutableSequence"

[[package]]
name = "fsspec"
version = "2022.11.0"
requires_python = ">=3.7"
summary = "File-system specification"

[[package]]
name = "fsspec"
version = "2022.11.0"
extras = ["http"]
requires_python = ">=3.7"
summary = "File-system specification"
dependencies = [
    "aiohttp!=4.0.0a0,!=4.0.0a1",
    "fsspec==2022.11.0",
    "requests",
]

[[package]]
name = "fsspec"
version = "2022.11.0"
extras = ["s3"]
requires_python = ">=3.7"
summary = "File-system specification"
dependencies = [
    "fsspec==2022.11.0",
    "s3fs",
]

[[package]]
name = "furo"
version = "2022.12.7"
requires_python = ">=3.7"
summary = "A clean customisable Sphinx documentation theme."
dependencies = [
    "beautifulsoup4",
    "pygments>=2.7",
    "sphinx-basic-ng",
    "sphinx<7.0,>=5.0",
]

[[package]]
name = "gitdb"
version = "4.0.10"
requires_python = ">=3.7"
summary = "Git Object Database"
dependencies = [
    "smmap<6,>=3.0.1",
]

[[package]]
name = "gitpython"
version = "3.1.30"
requires_python = ">=3.7"
summary = "GitPython is a python library used to interact with Git repositories"
dependencies = [
    "gitdb<5,>=4.0.1",
]

[[package]]
name = "greenlet"
version = "2.0.1"
requires_python = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*"
summary = "Lightweight in-process concurrent programming"

[[package]]
name = "grpcio"
version = "1.51.1"
requires_python = ">=3.7"
summary = "HTTP/2-based RPC framework"

[[package]]
name = "gunicorn"
version = "20.1.0"
requires_python = ">=3.5"
summary = "WSGI HTTP Server for UNIX"
dependencies = [
    "setuptools>=3.0",
]

[[package]]
name = "h5py"
version = "3.7.0"
requires_python = ">=3.7"
summary = "Read and write HDF5 files from Python"
dependencies = [
    "numpy>=1.14.5",
]

[[package]]
name = "hydra-core"
version = "1.3.1"
summary = "A framework for elegantly configuring complex applications"
dependencies = [
    "antlr4-python3-runtime==4.9.*",
    "importlib-resources; python_version < \"3.9\"",
    "omegaconf<2.4,>=2.2",
    "packaging",
]

[[package]]
name = "identify"
version = "2.5.13"
requires_python = ">=3.7"
summary = "File identification library for Python"

[[package]]
name = "idna"
version = "3.4"
requires_python = ">=3.5"
summary = "Internationalized Domain Names in Applications (IDNA)"

[[package]]
name = "imagecodecs"
version = "2022.12.24"
requires_python = ">=3.8"
summary = "Image transformation, compression, and decompression codecs"
dependencies = [
    "numpy",
]

[[package]]
name = "imageio"
version = "2.24.0"
requires_python = ">=3.7"
summary = "Library for reading and writing a wide range of image, video, scientific, and volumetric data formats."
dependencies = [
    "numpy",
    "pillow>=8.3.2",
]

[[package]]
name = "imagesize"
version = "1.4.1"
requires_python = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
summary = "Getting image size from png/jpeg/jpeg2000/gif file"

[[package]]
name = "importlib-metadata"
version = "5.2.0"
requires_python = ">=3.7"
summary = "Read metadata from Python packages"
dependencies = [
    "zipp>=0.5",
]

[[package]]
name = "importlib-resources"
version = "5.10.2"
requires_python = ">=3.7"
summary = "Read resources from Python packages"
dependencies = [
    "zipp>=3.1.0; python_version < \"3.10\"",
]

[[package]]
name = "iniconfig"
version = "2.0.0"
requires_python = ">=3.7"
summary = "brain-dead simple config-ini parsing"

[[package]]
name = "itsdangerous"
version = "2.1.2"
requires_python = ">=3.7"
summary = "Safely pass data to untrusted environments and back."

[[package]]
name = "jinja2"
version = "3.1.2"
requires_python = ">=3.7"
summary = "A very fast and expressive template engine."
dependencies = [
    "MarkupSafe>=2.0",
]

[[package]]
name = "jmespath"
version = "1.0.1"
requires_python = ">=3.7"
summary = "JSON Matching Expressions"

[[package]]
name = "joblib"
version = "1.2.0"
requires_python = ">=3.7"
summary = "Lightweight pipelining with Python functions"

[[package]]
name = "jsonschema"
version = "4.17.3"
requires_python = ">=3.7"
summary = "An implementation of JSON Schema validation for Python"
dependencies = [
    "attrs>=17.4.0",
    "importlib-resources>=1.4.0; python_version < \"3.9\"",
    "pkgutil-resolve-name>=1.3.10; python_version < \"3.9\"",
    "pyrsistent!=0.17.0,!=0.17.1,!=0.17.2,>=0.14.0",
]

[[package]]
name = "jupyter-core"
version = "5.1.3"
requires_python = ">=3.8"
summary = "Jupyter core package. A base package on which Jupyter projects rely."
dependencies = [
    "platformdirs>=2.5",
    "pywin32>=1.0; sys_platform == \"win32\" and platform_python_implementation != \"PyPy\"",
    "traitlets>=5.3",
]

[[package]]
name = "kiwisolver"
version = "1.4.4"
requires_python = ">=3.7"
summary = "A fast implementation of the Cassowary constraint solver"

[[package]]
name = "lightning-utilities"
version = "0.5.0"
requires_python = ">=3.7"
summary = "PyTorch Lightning Sample project."
dependencies = [
    "packaging>=20.0",
    "typing-extensions",
]

[[package]]
name = "llvmlite"
version = "0.39.1"
requires_python = ">=3.7"
summary = "lightweight wrapper around basic LLVM functionality"

[[package]]
name = "locket"
version = "1.0.0"
requires_python = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
summary = "File-based locks for Python on Linux and Windows"

[[package]]
name = "lxml"
version = "4.9.2"
requires_python = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, != 3.4.*"
summary = "Powerful and Pythonic XML processing library combining libxml2/libxslt with the ElementTree API."

[[package]]
name = "m2r2"
version = "0.3.3"
summary = "Markdown and reStructuredText in a single file."
dependencies = [
    "docutils>=0.19",
    "mistune==0.8.4",
]

[[package]]
name = "makefun"
version = "1.15.0"
summary = "Small library to dynamically create python functions."

[[package]]
name = "mako"
version = "1.2.4"
requires_python = ">=3.7"
summary = "A super-fast templating language that borrows the best ideas from the existing templating languages."
dependencies = [
    "MarkupSafe>=0.9.2",
]

[[package]]
name = "markdown"
version = "3.4.1"
requires_python = ">=3.7"
summary = "Python implementation of Markdown."
dependencies = [
    "importlib-metadata>=4.4; python_version < \"3.10\"",
]

[[package]]
name = "markupsafe"
version = "2.1.2"
requires_python = ">=3.7"
summary = "Safely add untrusted strings to HTML/XML markup."

[[package]]
name = "matplotlib"
version = "3.6.3"
requires_python = ">=3.8"
summary = "Python plotting package"
dependencies = [
    "contourpy>=1.0.1",
    "cycler>=0.10",
    "fonttools>=4.22.0",
    "kiwisolver>=1.0.1",
    "numpy>=1.19",
    "packaging>=20.0",
    "pillow>=6.2.0",
    "pyparsing>=2.2.1",
    "python-dateutil>=2.7",
]

[[package]]
name = "mistune"
version = "0.8.4"
summary = "The fastest markdown parser in pure Python"

[[package]]
name = "mlflow"
version = "2.1.1"
requires_python = ">=3.8"
summary = "MLflow: A Platform for ML Development and Productionization"
dependencies = [
    "Flask<3",
    "Jinja2<4,>=2.11; platform_system != \"Windows\"",
    "Jinja2<4,>=3.0; platform_system == \"Windows\"",
    "alembic<2",
    "click<9,>=7.0",
    "cloudpickle<3",
    "databricks-cli<1,>=0.8.7",
    "docker<7,>=4.0.0",
    "entrypoints<1",
    "gitpython<4,>=2.1.0",
    "gunicorn<21; platform_system != \"Windows\"",
    "importlib-metadata!=4.7.0,<6,>=3.7.0",
    "markdown<4,>=3.3",
    "matplotlib<4",
    "numpy<2",
    "packaging<23",
    "pandas<2",
    "protobuf<5,>=3.12.0",
    "pyarrow<11,>=4.0.0",
    "pytz<2023",
    "pyyaml<7,>=5.1",
    "querystring-parser<2",
    "requests<3,>=2.17.3",
    "scikit-learn<2",
    "scipy<2",
    "shap<1,>=0.40",
    "sqlalchemy<2,>=1.4.0",
    "sqlparse<1,>=0.4.0",
    "waitress<3; platform_system == \"Windows\"",
]

[[package]]
name = "modin"
version = "0.18.0"
requires_python = ">=3.8"
summary = "Modin: Make your pandas code run faster by changing one line of code."
dependencies = [
    "fsspec",
    "numpy>=1.18.5",
    "packaging",
    "pandas==1.5.2",
    "psutil",
]

[[package]]
name = "monai"
version = "1.1.0"
requires_python = ">=3.7"
summary = "AI Toolkit for Healthcare Imaging"
dependencies = [
    "numpy>=1.17",
    "torch>=1.8",
]

[[package]]
name = "multidict"
version = "6.0.4"
requires_python = ">=3.7"
summary = "multidict implementation"

[[package]]
name = "natsort"
version = "8.2.0"
requires_python = ">=3.6"
summary = "Simple yet flexible natural sorting in Python."

[[package]]
name = "nbformat"
version = "5.7.3"
requires_python = ">=3.7"
summary = "The Jupyter Notebook format"
dependencies = [
    "fastjsonschema",
    "jsonschema>=2.6",
    "jupyter-core",
    "traitlets>=5.1",
]

[[package]]
name = "networkx"
version = "3.0"
requires_python = ">=3.8"
summary = "Python package for creating and manipulating graphs and networks"

[[package]]
name = "nodeenv"
version = "1.7.0"
requires_python = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,!=3.6.*"
summary = "Node.js virtual environment builder"
dependencies = [
    "setuptools",
]

[[package]]
name = "numba"
version = "0.56.4"
requires_python = ">=3.7"
summary = "compiling Python code using LLVM"
dependencies = [
    "importlib-metadata; python_version < \"3.9\"",
    "llvmlite<0.40,>=0.39.0dev0",
    "numpy<1.24,>=1.18",
    "setuptools",
]

[[package]]
name = "numcodecs"
version = "0.11.0"
requires_python = ">=3.8"
summary = "A Python package providing buffer compression and transformation codecs for use"
dependencies = [
    "entrypoints",
    "numpy>=1.7",
]

[[package]]
name = "numpy"
version = "1.23.5"
requires_python = ">=3.8"
summary = "NumPy is the fundamental package for array computing with Python."

[[package]]
name = "nvidia-cublas-cu11"
version = "11.10.3.66"
requires_python = ">=3"
summary = "CUBLAS native runtime libraries"
dependencies = [
    "setuptools",
    "wheel",
]

[[package]]
name = "nvidia-cuda-nvrtc-cu11"
version = "11.7.99"
requires_python = ">=3"
summary = "NVRTC native runtime libraries"

[[package]]
name = "nvidia-cuda-runtime-cu11"
version = "11.7.99"
requires_python = ">=3"
summary = "CUDA Runtime native Libraries"
dependencies = [
    "setuptools",
    "wheel",
]

[[package]]
name = "nvidia-cudnn-cu11"
version = "8.5.0.96"
requires_python = ">=3"
summary = "cuDNN runtime libraries"
dependencies = [
    "nvidia-cublas-cu11",
]

[[package]]
name = "oauthlib"
version = "3.2.2"
requires_python = ">=3.6"
summary = "A generic, spec-compliant, thorough implementation of the OAuth request-signing logic"

[[package]]
name = "ome-types"
version = "0.3.2"
requires_python = ">=3.7"
summary = "Python dataclasses for the OME data model"
dependencies = [
    "Pint>=0.15",
    "lxml>=4.8.0",
    "pydantic[email]>=1.0",
    "xmlschema>=1.4.1",
]

[[package]]
name = "ome-zarr"
version = "0.6.1"
requires_python = ">=3.6"
summary = "Implementation of images in Zarr files."
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summary = "pytest: simple powerful testing with Python"
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summary = "Tensors and Dynamic neural networks in Python with strong GPU acceleration"
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