From 52c08ad90acca5cfa5486af6e566c812b8322926 Mon Sep 17 00:00:00 2001
From: Peter Goetz <pego@amazon.com>
Date: Thu, 26 Jan 2023 17:26:11 +0100
Subject: [PATCH] Remove rpy2 dependency

It's not needed anymore.

Signed-off-by: Peter Goetz <pego@amazon.com>
---
 binder/environment.yml                        |    1 -
 docs/source/conf.py                           |    1 -
 .../dowhy_causal_discovery_example.ipynb      |    5 +-
 poetry.lock                                   | 2690 ++++++++---------
 pyproject.toml                                |    2 +-
 tests/test_notebooks.py                       |    8 +-
 6 files changed, 1317 insertions(+), 1390 deletions(-)

diff --git a/binder/environment.yml b/binder/environment.yml
index 573a6160a..dfdcbc48c 100644
--- a/binder/environment.yml
+++ b/binder/environment.yml
@@ -14,7 +14,6 @@ dependencies:
   - pydot
   - seaborn
   - pygraphviz
-  - rpy2
   - ipython
   - jupyter
   - notebook
diff --git a/docs/source/conf.py b/docs/source/conf.py
index 97c7cc8e8..7b18b1085 100644
--- a/docs/source/conf.py
+++ b/docs/source/conf.py
@@ -94,7 +94,6 @@ exclude_patterns = [
     ".DS_Store",
     ".ipynb_checkpoints",
     "example_notebooks/dowhy_ranking_methods.ipynb",
-    "example_notebooks/dowhy_causal_discovery_example.ipynb",  # need to check why str_to_dot fails here
     "example_notebooks/dowhy_twins_example.ipynb",
 ]
 
diff --git a/docs/source/example_notebooks/dowhy_causal_discovery_example.ipynb b/docs/source/example_notebooks/dowhy_causal_discovery_example.ipynb
index f2a57bb6d..f6ac46b1f 100644
--- a/docs/source/example_notebooks/dowhy_causal_discovery_example.ipynb
+++ b/docs/source/example_notebooks/dowhy_causal_discovery_example.ipynb
@@ -18,9 +18,6 @@
     "import dowhy\n",
     "from dowhy import CausalModel\n",
     "\n",
-    "from rpy2.robjects import r as R\n",
-    "%load_ext rpy2.ipython\n",
-    "\n",
     "import numpy as np\n",
     "import pandas as pd\n",
     "import graphviz\n",
@@ -490,4 +487,4 @@
  },
  "nbformat": 4,
  "nbformat_minor": 2
-}
+}
\ No newline at end of file
diff --git a/poetry.lock b/poetry.lock
index 75fff1b47..0434c8df5 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -1,6 +1,6 @@
 [[package]]
 name = "absl-py"
-version = "1.3.0"
+version = "1.4.0"
 description = "Abseil Python Common Libraries, see https://github.com/abseil/abseil-py."
 category = "dev"
 optional = false
@@ -8,42 +8,30 @@ python-versions = ">=3.6"
 
 [[package]]
 name = "aiohttp"
-version = "3.8.3"
+version = "3.7.4.post0"
 description = "Async http client/server framework (asyncio)"
 category = "dev"
 optional = false
 python-versions = ">=3.6"
 
 [package.dependencies]
-aiosignal = ">=1.1.2"
-async-timeout = ">=4.0.0a3,<5.0"
+async-timeout = ">=3.0,<4.0"
 attrs = ">=17.3.0"
-charset-normalizer = ">=2.0,<3.0"
-frozenlist = ">=1.1.1"
+chardet = ">=2.0,<5.0"
 multidict = ">=4.5,<7.0"
+typing-extensions = ">=3.6.5"
 yarl = ">=1.0,<2.0"
 
 [package.extras]
-speedups = ["Brotli", "aiodns", "cchardet"]
-
-[[package]]
-name = "aiosignal"
-version = "1.3.1"
-description = "aiosignal: a list of registered asynchronous callbacks"
-category = "dev"
-optional = false
-python-versions = ">=3.7"
-
-[package.dependencies]
-frozenlist = ">=1.1.0"
+speedups = ["aiodns", "brotlipy", "cchardet"]
 
 [[package]]
 name = "alabaster"
-version = "0.7.12"
+version = "0.7.13"
 description = "A configurable sidebar-enabled Sphinx theme"
 category = "main"
 optional = false
-python-versions = "*"
+python-versions = ">=3.6"
 
 [[package]]
 name = "anyio"
@@ -140,29 +128,30 @@ wheel = ">=0.23.0,<1.0"
 
 [[package]]
 name = "async-timeout"
-version = "4.0.2"
+version = "3.0.1"
 description = "Timeout context manager for asyncio programs"
 category = "dev"
 optional = false
+python-versions = ">=3.5.3"
+
+[[package]]
+name = "attrs"
+version = "22.2.0"
+description = "Classes Without Boilerplate"
+category = "dev"
+optional = false
 python-versions = ">=3.6"
 
-[[package]]
-name = "attrs"
-version = "22.1.0"
-description = "Classes Without Boilerplate"
-category = "dev"
-optional = false
-python-versions = ">=3.5"
-
 [package.extras]
-dev = ["cloudpickle", "coverage[toml] (>=5.0.2)", "furo", "hypothesis", "mypy (>=0.900,!=0.940)", "pre-commit", "pympler", "pytest (>=4.3.0)", "pytest-mypy-plugins", "sphinx", "sphinx-notfound-page", "zope.interface"]
-docs = ["furo", "sphinx", "sphinx-notfound-page", "zope.interface"]
-tests = ["cloudpickle", "coverage[toml] (>=5.0.2)", "hypothesis", "mypy (>=0.900,!=0.940)", "pympler", "pytest (>=4.3.0)", "pytest-mypy-plugins", "zope.interface"]
-tests-no-zope = ["cloudpickle", "coverage[toml] (>=5.0.2)", "hypothesis", "mypy (>=0.900,!=0.940)", "pympler", "pytest (>=4.3.0)", "pytest-mypy-plugins"]
+cov = ["attrs[tests]", "coverage-enable-subprocess", "coverage[toml] (>=5.3)"]
+dev = ["attrs[docs,tests]"]
+docs = ["furo", "myst-parser", "sphinx", "sphinx-notfound-page", "sphinxcontrib-towncrier", "towncrier", "zope.interface"]
+tests = ["attrs[tests-no-zope]", "zope.interface"]
+tests-no-zope = ["cloudpickle", "cloudpickle", "hypothesis", "hypothesis", "mypy (>=0.971,<0.990)", "mypy (>=0.971,<0.990)", "pympler", "pympler", "pytest (>=4.3.0)", "pytest (>=4.3.0)", "pytest-mypy-plugins", "pytest-mypy-plugins", "pytest-xdist[psutil]", "pytest-xdist[psutil]"]
 
 [[package]]
 name = "autogluon-common"
-version = "0.6.1"
+version = "0.6.2"
 description = "AutoML for Image, Text, and Tabular Data"
 category = "main"
 optional = true
@@ -172,6 +161,7 @@ python-versions = ">=3.7, <3.10"
 boto3 = "*"
 numpy = ">=1.21,<1.24"
 pandas = ">=1.2.5,<1.4.0 || >1.4.0,<1.6"
+psutil = ">=5.7.3,<6"
 setuptools = "*"
 
 [package.extras]
@@ -179,20 +169,22 @@ tests = ["pytest", "pytest-mypy", "types-requests", "types-setuptools"]
 
 [[package]]
 name = "autogluon-core"
-version = "0.6.1"
+version = "0.6.2"
 description = "AutoML for Image, Text, and Tabular Data"
 category = "main"
 optional = true
 python-versions = ">=3.7, <3.10"
 
 [package.dependencies]
-"autogluon.common" = "0.6.1"
+"autogluon.common" = "0.6.2"
 boto3 = "*"
 dask = ">=2021.09.1,<=2021.11.2"
 distributed = ">=2021.09.1,<=2021.11.2"
 matplotlib = "*"
+networkx = ">=2.3,<3.0"
 numpy = ">=1.21,<1.24"
 pandas = ">=1.2.5,<1.4.0 || >1.4.0,<1.6"
+psutil = ">=5.7.3,<6"
 requests = "*"
 scikit-learn = ">=1.0.0,<1.2"
 scipy = ">=1.5.4,<1.10.0"
@@ -206,37 +198,35 @@ tests = ["pytest", "pytest-mypy", "types-requests", "types-setuptools"]
 
 [[package]]
 name = "autogluon-features"
-version = "0.6.1"
+version = "0.6.2"
 description = "AutoML for Image, Text, and Tabular Data"
 category = "main"
 optional = true
 python-versions = ">=3.7, <3.10"
 
 [package.dependencies]
-"autogluon.common" = "0.6.1"
+"autogluon.common" = "0.6.2"
 numpy = ">=1.21,<1.24"
 pandas = ">=1.2.5,<1.4.0 || >1.4.0,<1.6"
-psutil = ">=5.7.3,<6"
 scikit-learn = ">=1.0.0,<1.2"
 
 [[package]]
 name = "autogluon-tabular"
-version = "0.6.1"
+version = "0.6.2"
 description = "AutoML for Image, Text, and Tabular Data"
 category = "main"
 optional = true
 python-versions = ">=3.7, <3.10"
 
 [package.dependencies]
-"autogluon.core" = "0.6.1"
-"autogluon.features" = "0.6.1"
+"autogluon.core" = "0.6.2"
+"autogluon.features" = "0.6.2"
 catboost = {version = ">=1.0,<1.2", optional = true, markers = "extra == \"all\""}
 fastai = {version = ">=2.3.1,<2.8", optional = true, markers = "extra == \"all\""}
 lightgbm = {version = ">=3.3,<3.4", optional = true, markers = "extra == \"all\""}
 networkx = ">=2.3,<3.0"
 numpy = ">=1.21,<1.24"
 pandas = ">=1.2.5,<1.4.0 || >1.4.0,<1.6"
-psutil = ">=5.7.3,<6"
 scikit-learn = ">=1.0.0,<1.2"
 scipy = ">=1.5.4,<1.10.0"
 torch = {version = ">=1.0,<1.13", optional = true, markers = "extra == \"all\""}
@@ -246,11 +236,11 @@ xgboost = {version = ">=1.6,<1.8", optional = true, markers = "extra == \"all\""
 all = ["catboost (>=1.0,<1.2)", "fastai (>=2.3.1,<2.8)", "lightgbm (>=3.3,<3.4)", "torch (>=1.0,<1.13)", "xgboost (>=1.6,<1.8)"]
 catboost = ["catboost (>=1.0,<1.2)"]
 fastai = ["fastai (>=2.3.1,<2.8)", "torch (>=1.0,<1.13)"]
-imodels = ["imodels (>=1.3.0,<1.3.8)"]
+imodels = ["imodels (>=1.3.10,<1.4.0)"]
 lightgbm = ["lightgbm (>=3.3,<3.4)"]
 skex = ["scikit-learn-intelex (>=2021.6,<2021.8)"]
-skl2onnx = ["skl2onnx (>=1.12.0,<1.13.0)"]
-tests = ["imodels (>=1.3.0,<1.3.8)", "skl2onnx (>=1.12.0,<1.13.0)", "vowpalwabbit (>=8.10,<8.11)"]
+skl2onnx = ["skl2onnx (>=1.13.0,<1.14.0)"]
+tests = ["imodels (>=1.3.10,<1.4.0)", "skl2onnx (>=1.13.0,<1.14.0)", "vowpalwabbit (>=8.10,<8.11)"]
 vowpalwabbit = ["vowpalwabbit (>=8.10,<8.11)"]
 xgboost = ["xgboost (>=1.6,<1.8)"]
 
@@ -273,17 +263,6 @@ category = "dev"
 optional = false
 python-versions = "*"
 
-[[package]]
-name = "backports-zoneinfo"
-version = "0.2.1"
-description = "Backport of the standard library zoneinfo module"
-category = "dev"
-optional = false
-python-versions = ">=3.6"
-
-[package.extras]
-tzdata = ["tzdata"]
-
 [[package]]
 name = "beautifulsoup4"
 version = "4.11.1"
@@ -325,7 +304,7 @@ uvloop = ["uvloop (>=0.15.2)"]
 
 [[package]]
 name = "bleach"
-version = "5.0.1"
+version = "6.0.0"
 description = "An easy safelist-based HTML-sanitizing tool."
 category = "dev"
 optional = false
@@ -337,7 +316,6 @@ webencodings = "*"
 
 [package.extras]
 css = ["tinycss2 (>=1.1.0,<1.2)"]
-dev = ["Sphinx (==4.3.2)", "black (==22.3.0)", "build (==0.8.0)", "flake8 (==4.0.1)", "hashin (==0.17.0)", "mypy (==0.961)", "pip-tools (==6.6.2)", "pytest (==7.1.2)", "tox (==3.25.0)", "twine (==4.0.1)", "wheel (==0.37.1)"]
 
 [[package]]
 name = "blis"
@@ -352,14 +330,14 @@ numpy = ">=1.15.0"
 
 [[package]]
 name = "boto3"
-version = "1.26.32"
+version = "1.26.60"
 description = "The AWS SDK for Python"
 category = "main"
 optional = true
 python-versions = ">= 3.7"
 
 [package.dependencies]
-botocore = ">=1.29.32,<1.30.0"
+botocore = ">=1.29.60,<1.30.0"
 jmespath = ">=0.7.1,<2.0.0"
 s3transfer = ">=0.6.0,<0.7.0"
 
@@ -368,7 +346,7 @@ crt = ["botocore[crt] (>=1.21.0,<2.0a0)"]
 
 [[package]]
 name = "botocore"
-version = "1.29.32"
+version = "1.29.60"
 description = "Low-level, data-driven core of boto 3."
 category = "main"
 optional = true
@@ -384,7 +362,7 @@ crt = ["awscrt (==0.15.3)"]
 
 [[package]]
 name = "cachetools"
-version = "5.2.0"
+version = "5.3.0"
 description = "Extensible memoizing collections and decorators"
 category = "dev"
 optional = false
@@ -417,11 +395,11 @@ six = "*"
 
 [[package]]
 name = "causal-learn"
-version = "0.1.3.1"
+version = "0.1.3.2"
 description = "causal-learn Python Package"
 category = "main"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.7"
 
 [package.dependencies]
 graphviz = "*"
@@ -435,6 +413,27 @@ scipy = "*"
 statsmodels = "*"
 tqdm = "*"
 
+[[package]]
+name = "cdt"
+version = "0.6.0"
+description = "A Toolbox for causal graph inference"
+category = "dev"
+optional = false
+python-versions = "*"
+
+[package.dependencies]
+GPUtil = "*"
+joblib = "*"
+networkx = "*"
+numpy = "*"
+pandas = "*"
+requests = "*"
+scikit-learn = "*"
+scipy = "*"
+skrebate = "*"
+statsmodels = "*"
+tqdm = "*"
+
 [[package]]
 name = "certifi"
 version = "2022.12.7"
@@ -454,16 +453,21 @@ python-versions = "*"
 [package.dependencies]
 pycparser = "*"
 
+[[package]]
+name = "chardet"
+version = "4.0.0"
+description = "Universal encoding detector for Python 2 and 3"
+category = "dev"
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
+
 [[package]]
 name = "charset-normalizer"
-version = "2.1.1"
+version = "3.0.1"
 description = "The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet."
 category = "main"
 optional = false
-python-versions = ">=3.6.0"
-
-[package.extras]
-unicode-backport = ["unicodedata2"]
+python-versions = "*"
 
 [[package]]
 name = "click"
@@ -478,7 +482,7 @@ colorama = {version = "*", markers = "platform_system == \"Windows\""}
 
 [[package]]
 name = "cloudpickle"
-version = "2.2.0"
+version = "2.2.1"
 description = "Extended pickling support for Python objects"
 category = "main"
 optional = false
@@ -508,7 +512,7 @@ test = ["pytest"]
 
 [[package]]
 name = "confection"
-version = "0.0.3"
+version = "0.0.4"
 description = "The sweetest config system for Python"
 category = "main"
 optional = true
@@ -520,25 +524,25 @@ srsly = ">=2.4.0,<3.0.0"
 
 [[package]]
 name = "contourpy"
-version = "1.0.6"
+version = "1.0.7"
 description = "Python library for calculating contours of 2D quadrilateral grids"
 category = "main"
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=3.8"
 
 [package.dependencies]
 numpy = ">=1.16"
 
 [package.extras]
-bokeh = ["bokeh", "selenium"]
-docs = ["docutils (<0.18)", "sphinx (<=5.2.0)", "sphinx-rtd-theme"]
-test = ["Pillow", "flake8", "isort", "matplotlib", "pytest"]
-test-minimal = ["pytest"]
-test-no-codebase = ["Pillow", "matplotlib", "pytest"]
+bokeh = ["bokeh", "chromedriver", "selenium"]
+docs = ["furo", "sphinx-copybutton"]
+mypy = ["contourpy[bokeh]", "docutils-stubs", "mypy (==0.991)", "types-Pillow"]
+test = ["Pillow", "matplotlib", "pytest"]
+test-no-images = ["pytest"]
 
 [[package]]
 name = "coverage"
-version = "6.5.0"
+version = "7.1.0"
 description = "Code coverage measurement for Python"
 category = "dev"
 optional = false
@@ -552,7 +556,7 @@ toml = ["tomli"]
 
 [[package]]
 name = "cvxpy"
-version = "1.2.2"
+version = "1.3.0"
 description = "A domain-specific language for modeling convex optimization problems in Python."
 category = "main"
 optional = false
@@ -564,6 +568,25 @@ numpy = ">=1.15"
 osqp = ">=0.4.1"
 scipy = ">=1.1.0"
 scs = ">=1.1.6"
+setuptools = "<=64.0.2"
+
+[package.extras]
+cbc = ["cylp (>=0.91.5)"]
+clarabel = ["clarabel"]
+cvxopt = ["cvxopt"]
+diffcp = ["diffcp"]
+glop = ["ortools (>=9.3,<9.5)"]
+glpk = ["cvxopt"]
+glpk-mi = ["cvxopt"]
+gurobi = ["gurobipy"]
+highs = ["scipy (>=1.6.1)"]
+mosek = ["Mosek"]
+pdlp = ["ortools (>=9.3,<9.5)"]
+proxqp = ["proxsuite"]
+scip = ["PySCIPOpt"]
+scipy = ["scipy"]
+scs = ["setuptools (<64.0.2)"]
+xpress = ["xpress"]
 
 [[package]]
 name = "cycler"
@@ -583,7 +606,7 @@ python-versions = "*"
 
 [[package]]
 name = "cython"
-version = "0.29.32"
+version = "0.29.33"
 description = "The Cython compiler for writing C extensions for the Python language."
 category = "main"
 optional = false
@@ -615,7 +638,7 @@ test = ["pre-commit", "pytest", "pytest-rerunfailures", "pytest-xdist"]
 
 [[package]]
 name = "debugpy"
-version = "1.6.4"
+version = "1.6.6"
 description = "An implementation of the Debug Adapter Protocol for Python"
 category = "dev"
 optional = false
@@ -696,7 +719,7 @@ tf = ["keras (<2.4)", "protobuf (<4)", "tensorflow (>1.10,<2.3)"]
 
 [[package]]
 name = "ecos"
-version = "2.0.10"
+version = "2.0.12"
 description = "This is the Python package for ECOS: Embedded Cone Solver. See Github page for more information."
 category = "main"
 optional = false
@@ -706,17 +729,9 @@ python-versions = "*"
 numpy = ">=1.6"
 scipy = ">=0.9"
 
-[[package]]
-name = "entrypoints"
-version = "0.4"
-description = "Discover and load entry points from installed packages."
-category = "dev"
-optional = false
-python-versions = ">=3.6"
-
 [[package]]
 name = "exceptiongroup"
-version = "1.0.4"
+version = "1.1.0"
 description = "Backport of PEP 654 (exception groups)"
 category = "dev"
 optional = false
@@ -833,7 +848,7 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 
 [[package]]
 name = "flatbuffers"
-version = "22.12.6"
+version = "23.1.21"
 description = "The FlatBuffers serialization format for Python"
 category = "dev"
 optional = false
@@ -869,17 +884,9 @@ category = "dev"
 optional = false
 python-versions = ">=2.7, !=3.0, !=3.1, !=3.2, !=3.3, !=3.4, <4"
 
-[[package]]
-name = "frozenlist"
-version = "1.3.3"
-description = "A list-like structure which implements collections.abc.MutableSequence"
-category = "dev"
-optional = false
-python-versions = ">=3.7"
-
 [[package]]
 name = "fsspec"
-version = "2022.11.0"
+version = "2023.1.0"
 description = "File-system specification"
 category = "main"
 optional = false
@@ -922,7 +929,7 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 
 [[package]]
 name = "google-auth"
-version = "2.15.0"
+version = "2.16.0"
 description = "Google Authentication Library"
 category = "dev"
 optional = false
@@ -939,6 +946,7 @@ aiohttp = ["aiohttp (>=3.6.2,<4.0.0dev)", "requests (>=2.20.0,<3.0.0dev)"]
 enterprise-cert = ["cryptography (==36.0.2)", "pyopenssl (==22.0.0)"]
 pyopenssl = ["cryptography (>=38.0.3)", "pyopenssl (>=20.0.0)"]
 reauth = ["pyu2f (>=0.1.5)"]
+requests = ["requests (>=2.20.0,<3.0.0dev)"]
 
 [[package]]
 name = "google-auth-oauthlib"
@@ -966,6 +974,14 @@ python-versions = "*"
 [package.dependencies]
 six = "*"
 
+[[package]]
+name = "gputil"
+version = "1.4.0"
+description = "GPUtil is a Python module for getting the GPU status from NVIDA GPUs using nvidia-smi."
+category = "dev"
+optional = false
+python-versions = "*"
+
 [[package]]
 name = "graphviz"
 version = "0.20.1"
@@ -992,7 +1008,7 @@ protobuf = ["grpcio-tools (>=1.51.1)"]
 
 [[package]]
 name = "h5py"
-version = "3.7.0"
+version = "3.8.0"
 description = "Read and write HDF5 files from Python"
 category = "dev"
 optional = false
@@ -1027,7 +1043,7 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 
 [[package]]
 name = "importlib-metadata"
-version = "5.1.0"
+version = "6.0.0"
 description = "Read metadata from Python packages"
 category = "main"
 optional = false
@@ -1037,13 +1053,13 @@ python-versions = ">=3.7"
 zipp = ">=0.5"
 
 [package.extras]
-docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)"]
+docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-lint"]
 perf = ["ipython"]
 testing = ["flake8 (<5)", "flufl.flake8", "importlib-resources (>=1.3)", "packaging", "pyfakefs", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-flake8", "pytest-mypy (>=0.9.1)", "pytest-perf (>=0.9.2)"]
 
 [[package]]
 name = "importlib-resources"
-version = "5.10.1"
+version = "5.10.2"
 description = "Read resources from Python packages"
 category = "dev"
 optional = false
@@ -1053,20 +1069,20 @@ python-versions = ">=3.7"
 zipp = {version = ">=3.1.0", markers = "python_version < \"3.10\""}
 
 [package.extras]
-docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)"]
+docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-lint"]
 testing = ["flake8 (<5)", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-flake8", "pytest-mypy (>=0.9.1)"]
 
 [[package]]
 name = "iniconfig"
-version = "1.1.1"
-description = "iniconfig: brain-dead simple config-ini parsing"
+version = "2.0.0"
+description = "brain-dead simple config-ini parsing"
 category = "dev"
 optional = false
-python-versions = "*"
+python-versions = ">=3.7"
 
 [[package]]
 name = "ipykernel"
-version = "6.19.2"
+version = "6.20.2"
 description = "IPython Kernel for Jupyter"
 category = "dev"
 optional = false
@@ -1088,14 +1104,14 @@ traitlets = ">=5.4.0"
 
 [package.extras]
 cov = ["coverage[toml]", "curio", "matplotlib", "pytest-cov", "trio"]
-docs = ["myst-parser", "pydata-sphinx-theme", "sphinx", "sphinxcontrib-github-alt"]
-lint = ["black (>=22.6.0)", "mdformat (>0.7)", "ruff (>=0.0.156)"]
+docs = ["myst-parser", "pydata-sphinx-theme", "sphinx", "sphinx-autodoc-typehints", "sphinxcontrib-github-alt", "sphinxcontrib-spelling", "trio"]
+pyqt5 = ["pyqt5"]
+pyside6 = ["pyside6"]
 test = ["flaky", "ipyparallel", "pre-commit", "pytest (>=7.0)", "pytest-asyncio", "pytest-cov", "pytest-timeout"]
-typing = ["mypy (>=0.990)"]
 
 [[package]]
 name = "ipython"
-version = "8.7.0"
+version = "8.9.0"
 description = "IPython: Productive Interactive Computing"
 category = "dev"
 optional = false
@@ -1110,7 +1126,7 @@ jedi = ">=0.16"
 matplotlib-inline = "*"
 pexpect = {version = ">4.3", markers = "sys_platform != \"win32\""}
 pickleshare = "*"
-prompt-toolkit = ">=3.0.11,<3.1.0"
+prompt-toolkit = ">=3.0.30,<3.1.0"
 pygments = ">=2.4.0"
 stack-data = "*"
 traitlets = ">=5"
@@ -1138,7 +1154,7 @@ python-versions = "*"
 
 [[package]]
 name = "ipywidgets"
-version = "8.0.3"
+version = "8.0.4"
 description = "Jupyter interactive widgets"
 category = "dev"
 optional = false
@@ -1167,15 +1183,15 @@ arrow = ">=0.15.0"
 
 [[package]]
 name = "isort"
-version = "5.11.2"
+version = "5.12.0"
 description = "A Python utility / library to sort Python imports."
 category = "dev"
 optional = false
-python-versions = ">=3.7.0"
+python-versions = ">=3.8.0"
 
 [package.extras]
-colors = ["colorama (>=0.4.3,<0.5.0)"]
-pipfile-deprecated-finder = ["pipreqs", "requirementslib"]
+colors = ["colorama (>=0.4.3)"]
+pipfile-deprecated-finder = ["pip-shims (>=0.5.2)", "pipreqs", "requirementslib"]
 plugins = ["setuptools"]
 requirements-deprecated-finder = ["pip-api", "pipreqs"]
 
@@ -1277,24 +1293,23 @@ qtconsole = "*"
 
 [[package]]
 name = "jupyter-client"
-version = "7.4.8"
+version = "8.0.2"
 description = "Jupyter protocol implementation and client libraries"
 category = "dev"
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=3.8"
 
 [package.dependencies]
-entrypoints = "*"
-jupyter-core = ">=4.9.2"
-nest-asyncio = ">=1.5.4"
+importlib-metadata = {version = ">=4.8.3", markers = "python_version < \"3.10\""}
+jupyter-core = ">=4.12,<5.0.0 || >=5.1.0"
 python-dateutil = ">=2.8.2"
 pyzmq = ">=23.0"
 tornado = ">=6.2"
-traitlets = "*"
+traitlets = ">=5.3"
 
 [package.extras]
-doc = ["ipykernel", "myst-parser", "sphinx (>=1.3.6)", "sphinx-rtd-theme", "sphinxcontrib-github-alt"]
-test = ["codecov", "coverage", "ipykernel (>=6.12)", "ipython", "mypy", "pre-commit", "pytest", "pytest-asyncio (>=0.18)", "pytest-cov", "pytest-timeout"]
+docs = ["ipykernel", "myst-parser", "pydata-sphinx-theme", "sphinx (>=4)", "sphinx-autodoc-typehints", "sphinxcontrib-github-alt", "sphinxcontrib-spelling"]
+test = ["codecov", "coverage", "ipykernel (>=6.14)", "mypy", "paramiko", "pre-commit", "pytest", "pytest-cov", "pytest-jupyter[client] (>=0.4.1)", "pytest-timeout"]
 
 [[package]]
 name = "jupyter-console"
@@ -1316,7 +1331,7 @@ test = ["pexpect"]
 
 [[package]]
 name = "jupyter-core"
-version = "5.1.0"
+version = "5.2.0"
 description = "Jupyter core package. A base package on which Jupyter projects rely."
 category = "dev"
 optional = false
@@ -1328,30 +1343,33 @@ pywin32 = {version = ">=1.0", markers = "sys_platform == \"win32\" and platform_
 traitlets = ">=5.3"
 
 [package.extras]
-docs = ["myst-parser", "sphinxcontrib-github-alt", "traitlets"]
+docs = ["myst-parser", "sphinx-autodoc-typehints", "sphinxcontrib-github-alt", "sphinxcontrib-spelling", "traitlets"]
 test = ["ipykernel", "pre-commit", "pytest", "pytest-cov", "pytest-timeout"]
 
 [[package]]
 name = "jupyter-events"
-version = "0.5.0"
+version = "0.6.3"
 description = "Jupyter Event System library"
 category = "dev"
 optional = false
 python-versions = ">=3.7"
 
 [package.dependencies]
-jsonschema = {version = ">=4.3.0", extras = ["format-nongpl"]}
-python-json-logger = "*"
-pyyaml = "*"
-traitlets = "*"
+jsonschema = {version = ">=3.2.0", extras = ["format-nongpl"]}
+python-json-logger = ">=2.0.4"
+pyyaml = ">=5.3"
+rfc3339-validator = "*"
+rfc3986-validator = ">=0.1.1"
+traitlets = ">=5.3"
 
 [package.extras]
 cli = ["click", "rich"]
-test = ["click", "coverage", "pre-commit", "pytest (>=6.1.0)", "pytest-asyncio (>=0.19.0)", "pytest-console-scripts", "pytest-cov", "rich"]
+docs = ["jupyterlite-sphinx", "myst-parser", "pydata-sphinx-theme", "sphinxcontrib-spelling"]
+test = ["click", "coverage", "pre-commit", "pytest (>=7.0)", "pytest-asyncio (>=0.19.0)", "pytest-console-scripts", "pytest-cov", "rich"]
 
 [[package]]
 name = "jupyter-server"
-version = "2.0.1"
+version = "2.1.0"
 description = "The backend—i.e. core services, APIs, and REST endpoints—to Jupyter web applications."
 category = "dev"
 optional = false
@@ -1378,14 +1396,12 @@ traitlets = ">=5.6.0"
 websocket-client = "*"
 
 [package.extras]
-docs = ["docutils (<0.20)", "ipykernel", "jinja2", "jupyter-client", "jupyter-server", "mistune (<1.0.0)", "myst-parser", "nbformat", "prometheus-client", "pydata-sphinx-theme", "send2trash", "sphinxcontrib-github-alt", "sphinxcontrib-openapi", "sphinxemoji", "tornado"]
-lint = ["black (>=22.6.0)", "mdformat (>0.7)", "ruff (>=0.0.156)"]
+docs = ["docutils (<0.20)", "ipykernel", "jinja2", "jupyter-client", "jupyter-server", "mistune (<1.0.0)", "myst-parser", "nbformat", "prometheus-client", "pydata-sphinx-theme", "send2trash", "sphinx-autodoc-typehints", "sphinxcontrib-github-alt", "sphinxcontrib-openapi", "sphinxcontrib-spelling", "sphinxemoji", "tornado"]
 test = ["ipykernel", "pre-commit", "pytest (>=7.0)", "pytest-console-scripts", "pytest-jupyter[server] (>=0.4)", "pytest-timeout", "requests"]
-typing = ["mypy (>=0.990)"]
 
 [[package]]
 name = "jupyter-server-terminals"
-version = "0.4.2"
+version = "0.4.4"
 description = "A Jupyter Server Extension Providing Terminals."
 category = "dev"
 optional = false
@@ -1396,8 +1412,8 @@ pywinpty = {version = ">=2.0.3", markers = "os_name == \"nt\""}
 terminado = ">=0.8.3"
 
 [package.extras]
-docs = ["jinja2", "jupyter-server", "mistune (<2.0)", "myst-parser", "nbformat", "packaging", "pydata-sphinx-theme", "sphinxcontrib-github-alt", "sphinxcontrib-openapi", "sphinxemoji", "tornado"]
-test = ["coverage", "jupyter-server (>=2.0.0rc8)", "pytest (>=7.0)", "pytest-cov", "pytest-jupyter[server] (>=0.5.3)", "pytest-timeout"]
+docs = ["jinja2", "jupyter-server", "mistune (<3.0)", "myst-parser", "nbformat", "packaging", "pydata-sphinx-theme", "sphinxcontrib-github-alt", "sphinxcontrib-openapi", "sphinxcontrib-spelling", "sphinxemoji", "tornado"]
+test = ["coverage", "jupyter-server (>=2.0.0)", "pytest (>=7.0)", "pytest-cov", "pytest-jupyter[server] (>=0.5.3)", "pytest-timeout"]
 
 [[package]]
 name = "jupyterlab-pygments"
@@ -1409,7 +1425,7 @@ python-versions = ">=3.7"
 
 [[package]]
 name = "jupyterlab-widgets"
-version = "3.0.4"
+version = "3.0.5"
 description = "Jupyter interactive widgets for JupyterLab"
 category = "dev"
 optional = false
@@ -1444,7 +1460,7 @@ data = ["language-data (>=1.1,<2.0)"]
 
 [[package]]
 name = "libclang"
-version = "14.0.6"
+version = "15.0.6.1"
 description = "Clang Python Bindings, mirrored from the official LLVM repo: https://github.com/llvm/llvm-project/tree/main/clang/bindings/python, to make the installation process easier."
 category = "dev"
 optional = false
@@ -1452,7 +1468,7 @@ python-versions = "*"
 
 [[package]]
 name = "lightgbm"
-version = "3.3.3"
+version = "3.3.5"
 description = "LightGBM Python Package"
 category = "main"
 optional = false
@@ -1469,14 +1485,14 @@ dask = ["dask[array] (>=2.0.0)", "dask[dataframe] (>=2.0.0)", "dask[distributed]
 
 [[package]]
 name = "lightning-utilities"
-version = "0.5.0"
+version = "0.6.0.post0"
 description = "PyTorch Lightning Sample project."
 category = "dev"
 optional = false
 python-versions = ">=3.7"
 
 [package.dependencies]
-packaging = ">=20.0"
+packaging = ">=17.1"
 typing-extensions = "*"
 
 [package.extras]
@@ -1516,7 +1532,7 @@ testing = ["coverage", "pyyaml"]
 
 [[package]]
 name = "markupsafe"
-version = "2.1.1"
+version = "2.1.2"
 description = "Safely add untrusted strings to HTML/XML markup."
 category = "main"
 optional = false
@@ -1524,7 +1540,7 @@ python-versions = ">=3.7"
 
 [[package]]
 name = "matplotlib"
-version = "3.6.2"
+version = "3.6.3"
 description = "Python plotting package"
 category = "main"
 optional = false
@@ -1591,7 +1607,7 @@ python-versions = "*"
 
 [[package]]
 name = "multidict"
-version = "6.0.3"
+version = "6.0.4"
 description = "multidict implementation"
 category = "dev"
 optional = false
@@ -1633,8 +1649,8 @@ python-versions = "*"
 
 [[package]]
 name = "nbclassic"
-version = "0.4.8"
-description = "A web-based notebook environment for interactive computing"
+version = "0.5.1"
+description = "Jupyter Notebook as a Jupyter Server extension."
 category = "dev"
 optional = false
 python-versions = ">=3.7"
@@ -1646,7 +1662,7 @@ ipython-genutils = "*"
 jinja2 = "*"
 jupyter-client = ">=6.1.1"
 jupyter-core = ">=4.6.1"
-jupyter-server = ">=1.8"
+jupyter-server = ">=1.17.0"
 nbconvert = ">=5"
 nbformat = "*"
 nest-asyncio = ">=1.5"
@@ -1661,7 +1677,7 @@ traitlets = ">=4.2.1"
 [package.extras]
 docs = ["myst-parser", "nbsphinx", "sphinx", "sphinx-rtd-theme", "sphinxcontrib-github-alt"]
 json-logging = ["json-logging"]
-test = ["coverage", "nbval", "pytest", "pytest-cov", "pytest-playwright", "pytest-tornasync", "requests", "requests-unixsocket", "testpath"]
+test = ["coverage", "nbval", "pytest", "pytest-cov", "pytest-jupyter", "pytest-playwright", "pytest-tornasync", "requests", "requests-unixsocket", "testpath"]
 
 [[package]]
 name = "nbclient"
@@ -1717,7 +1733,7 @@ webpdf = ["pyppeteer (>=1,<1.1)"]
 
 [[package]]
 name = "nbformat"
-version = "5.7.0"
+version = "5.7.3"
 description = "The Jupyter Notebook format"
 category = "dev"
 optional = false
@@ -1730,11 +1746,12 @@ jupyter-core = "*"
 traitlets = ">=5.1"
 
 [package.extras]
-test = ["check-manifest", "pep440", "pre-commit", "pytest", "testpath"]
+docs = ["myst-parser", "pydata-sphinx-theme", "sphinx", "sphinxcontrib-github-alt", "sphinxcontrib-spelling"]
+test = ["pep440", "pre-commit", "pytest", "testpath"]
 
 [[package]]
 name = "nbsphinx"
-version = "0.8.10"
+version = "0.8.12"
 description = "Jupyter Notebook Tools for Sphinx"
 category = "dev"
 optional = false
@@ -1881,7 +1898,7 @@ scipy = ">=0.13.2"
 
 [[package]]
 name = "packaging"
-version = "22.0"
+version = "23.0"
 description = "Core utilities for Python packages"
 category = "main"
 optional = false
@@ -1889,7 +1906,7 @@ python-versions = ">=3.7"
 
 [[package]]
 name = "pandas"
-version = "1.5.2"
+version = "1.5.3"
 description = "Powerful data structures for data analysis, time series, and statistics"
 category = "main"
 optional = false
@@ -1951,7 +1968,7 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 
 [[package]]
 name = "pathspec"
-version = "0.10.3"
+version = "0.11.0"
 description = "Utility library for gitignore style pattern matching of file paths."
 category = "dev"
 optional = false
@@ -2012,19 +2029,19 @@ python-versions = "*"
 
 [[package]]
 name = "pillow"
-version = "9.3.0"
+version = "9.4.0"
 description = "Python Imaging Library (Fork)"
 category = "main"
 optional = false
 python-versions = ">=3.7"
 
 [package.extras]
-docs = ["furo", "olefile", "sphinx (>=2.4)", "sphinx-copybutton", "sphinx-issues (>=3.0.1)", "sphinx-removed-in", "sphinxext-opengraph"]
+docs = ["furo", "olefile", "sphinx (>=2.4)", "sphinx-copybutton", "sphinx-inline-tabs", "sphinx-issues (>=3.0.1)", "sphinx-removed-in", "sphinxext-opengraph"]
 tests = ["check-manifest", "coverage", "defusedxml", "markdown2", "olefile", "packaging", "pyroma", "pytest", "pytest-cov", "pytest-timeout"]
 
 [[package]]
 name = "pip"
-version = "22.3.1"
+version = "23.0"
 description = "The PyPA recommended tool for installing Python packages."
 category = "main"
 optional = true
@@ -2040,19 +2057,19 @@ python-versions = ">=3.6"
 
 [[package]]
 name = "platformdirs"
-version = "2.6.0"
+version = "2.6.2"
 description = "A small Python package for determining appropriate platform-specific dirs, e.g. a \"user data dir\"."
 category = "dev"
 optional = false
 python-versions = ">=3.7"
 
 [package.extras]
-docs = ["furo (>=2022.9.29)", "proselint (>=0.13)", "sphinx (>=5.3)", "sphinx-autodoc-typehints (>=1.19.4)"]
-test = ["appdirs (==1.4.4)", "pytest (>=7.2)", "pytest-cov (>=4)", "pytest-mock (>=3.10)"]
+docs = ["furo (>=2022.12.7)", "proselint (>=0.13)", "sphinx (>=5.3)", "sphinx-autodoc-typehints (>=1.19.5)"]
+test = ["appdirs (==1.4.4)", "covdefaults (>=2.2.2)", "pytest (>=7.2)", "pytest-cov (>=4)", "pytest-mock (>=3.10)"]
 
 [[package]]
 name = "plotly"
-version = "5.11.0"
+version = "5.13.0"
 description = "An open-source, interactive data visualization library for Python"
 category = "main"
 optional = true
@@ -2102,7 +2119,7 @@ murmurhash = ">=0.28.0,<1.1.0"
 
 [[package]]
 name = "prometheus-client"
-version = "0.15.0"
+version = "0.16.0"
 description = "Python client for the Prometheus monitoring system."
 category = "dev"
 optional = false
@@ -2160,14 +2177,6 @@ python-versions = "*"
 [package.extras]
 tests = ["pytest"]
 
-[[package]]
-name = "py"
-version = "1.11.0"
-description = "library with cross-python path, ini-parsing, io, code, log facilities"
-category = "dev"
-optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
-
 [[package]]
 name = "pyasn1"
 version = "0.4.8"
@@ -2205,14 +2214,14 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 
 [[package]]
 name = "pydantic"
-version = "1.10.2"
+version = "1.10.4"
 description = "Data validation and settings management using python type hints"
 category = "main"
 optional = true
 python-versions = ">=3.7"
 
 [package.dependencies]
-typing-extensions = ">=4.1.0"
+typing-extensions = ">=4.2.0"
 
 [package.extras]
 dotenv = ["python-dotenv (>=0.10.4)"]
@@ -2259,7 +2268,7 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 
 [[package]]
 name = "pygments"
-version = "2.13.0"
+version = "2.14.0"
 description = "Pygments is a syntax highlighting package written in Python."
 category = "main"
 optional = false
@@ -2289,7 +2298,7 @@ diagrams = ["jinja2", "railroad-diagrams"]
 
 [[package]]
 name = "pyrsistent"
-version = "0.19.2"
+version = "0.19.3"
 description = "Persistent/Functional/Immutable data structures"
 category = "dev"
 optional = false
@@ -2297,7 +2306,7 @@ python-versions = ">=3.7"
 
 [[package]]
 name = "pytest"
-version = "7.2.0"
+version = "7.2.1"
 description = "pytest: simple powerful testing with Python"
 category = "dev"
 optional = false
@@ -2362,7 +2371,7 @@ python-versions = ">=3.5"
 
 [[package]]
 name = "pytorch-lightning"
-version = "1.8.6"
+version = "1.9.0"
 description = "PyTorch Lightning is the lightweight PyTorch wrapper for ML researchers. Scale your models. Write less boilerplate."
 category = "dev"
 optional = false
@@ -2370,48 +2379,35 @@ python-versions = ">=3.7"
 
 [package.dependencies]
 fsspec = {version = ">2021.06.0", extras = ["http"]}
-lightning-utilities = ">=0.3.0,<0.4.0 || >0.4.0"
+lightning-utilities = ">=0.4.2"
 numpy = ">=1.17.2"
-packaging = ">=17.0"
+packaging = ">=17.1"
 PyYAML = ">=5.4"
-tensorboardX = ">=2.2"
-torch = ">=1.9.0"
+torch = ">=1.10.0"
 torchmetrics = ">=0.7.0"
 tqdm = ">=4.57.0"
 typing-extensions = ">=4.0.0"
 
 [package.extras]
-all = ["cloudpickle (>=1.3)", "codecov (==2.1.12)", "coverage (==6.5.0)", "deepspeed (>=0.6.0)", "fairscale (>=0.4.5)", "fastapi", "gym[classic-control] (>=0.17.0)", "hivemind (==1.1.2)", "horovod (>=0.21.2,!=0.24.0)", "hydra-core (>=1.0.5)", "ipython[all]", "jsonargparse[signatures] (>=4.15.2)", "matplotlib (>3.1)", "omegaconf (>=2.0.5)", "onnxruntime", "pandas (>1.0)", "pre-commit (==2.20.0)", "protobuf (<=3.20.1)", "psutil", "pytest (==7.2.0)", "pytest-cov (==4.0.0)", "pytest-forked (==1.4.0)", "pytest-rerunfailures (==10.2)", "rich (>=10.14.0,!=10.15.0.a)", "scikit-learn (>0.22.1)", "tensorboard (>=2.9.1)", "torchvision (>=0.10.0)", "uvicorn"]
+all = ["deepspeed (>=0.6.0)", "fairscale (>=0.4.5)", "gym[classic-control] (>=0.17.0)", "hivemind (==1.1.5)", "horovod (>=0.21.2,!=0.24.0)", "hydra-core (>=1.0.5)", "ipython[all] (<8.7.1)", "jsonargparse[signatures] (>=4.18.0)", "matplotlib (>3.1)", "omegaconf (>=2.0.5)", "rich (>=10.14.0,!=10.15.0.a)", "tensorboardX (>=2.2)", "torchvision (>=0.11.1)"]
 deepspeed = ["deepspeed (>=0.6.0)"]
-dev = ["cloudpickle (>=1.3)", "codecov (==2.1.12)", "coverage (==6.5.0)", "fastapi", "hydra-core (>=1.0.5)", "jsonargparse[signatures] (>=4.15.2)", "matplotlib (>3.1)", "omegaconf (>=2.0.5)", "onnxruntime", "pandas (>1.0)", "pre-commit (==2.20.0)", "protobuf (<=3.20.1)", "psutil", "pytest (==7.2.0)", "pytest-cov (==4.0.0)", "pytest-forked (==1.4.0)", "pytest-rerunfailures (==10.2)", "rich (>=10.14.0,!=10.15.0.a)", "scikit-learn (>0.22.1)", "tensorboard (>=2.9.1)", "uvicorn"]
-examples = ["gym[classic-control] (>=0.17.0)", "ipython[all]", "torchvision (>=0.10.0)"]
-extra = ["hydra-core (>=1.0.5)", "jsonargparse[signatures] (>=4.15.2)", "matplotlib (>3.1)", "omegaconf (>=2.0.5)", "rich (>=10.14.0,!=10.15.0.a)"]
+dev = ["cloudpickle (>=1.3)", "codecov (==2.1.12)", "coverage (==6.5.0)", "deepspeed (>=0.6.0)", "fairscale (>=0.4.5)", "fastapi (<0.87.0)", "gym[classic-control] (>=0.17.0)", "hivemind (==1.1.5)", "horovod (>=0.21.2,!=0.24.0)", "hydra-core (>=1.0.5)", "ipython[all] (<8.7.1)", "jsonargparse[signatures] (>=4.18.0)", "matplotlib (>3.1)", "omegaconf (>=2.0.5)", "onnxruntime (<1.14.0)", "pandas (>1.0)", "pre-commit (==2.20.0)", "protobuf (<=3.20.1)", "psutil (<5.9.5)", "pytest (==7.2.0)", "pytest-cov (==4.0.0)", "pytest-forked (==1.4.0)", "pytest-rerunfailures (==10.3)", "rich (>=10.14.0,!=10.15.0.a)", "scikit-learn (>0.22.1)", "tensorboard (>=2.9.1)", "tensorboardX (>=2.2)", "torchvision (>=0.11.1)", "uvicorn (<0.19.1)"]
+examples = ["gym[classic-control] (>=0.17.0)", "ipython[all] (<8.7.1)", "torchvision (>=0.11.1)"]
+extra = ["hydra-core (>=1.0.5)", "jsonargparse[signatures] (>=4.18.0)", "matplotlib (>3.1)", "omegaconf (>=2.0.5)", "rich (>=10.14.0,!=10.15.0.a)", "tensorboardX (>=2.2)"]
 fairscale = ["fairscale (>=0.4.5)"]
-hivemind = ["hivemind (==1.1.2)"]
+hivemind = ["hivemind (==1.1.5)"]
 horovod = ["horovod (>=0.21.2,!=0.24.0)"]
-strategies = ["deepspeed (>=0.6.0)", "fairscale (>=0.4.5)", "hivemind (==1.1.2)", "horovod (>=0.21.2,!=0.24.0)"]
-test = ["cloudpickle (>=1.3)", "codecov (==2.1.12)", "coverage (==6.5.0)", "fastapi", "onnxruntime", "pandas (>1.0)", "pre-commit (==2.20.0)", "protobuf (<=3.20.1)", "psutil", "pytest (==7.2.0)", "pytest-cov (==4.0.0)", "pytest-forked (==1.4.0)", "pytest-rerunfailures (==10.2)", "scikit-learn (>0.22.1)", "tensorboard (>=2.9.1)", "uvicorn"]
+strategies = ["deepspeed (>=0.6.0)", "fairscale (>=0.4.5)", "hivemind (==1.1.5)", "horovod (>=0.21.2,!=0.24.0)"]
+test = ["cloudpickle (>=1.3)", "codecov (==2.1.12)", "coverage (==6.5.0)", "fastapi (<0.87.0)", "onnxruntime (<1.14.0)", "pandas (>1.0)", "pre-commit (==2.20.0)", "protobuf (<=3.20.1)", "psutil (<5.9.5)", "pytest (==7.2.0)", "pytest-cov (==4.0.0)", "pytest-forked (==1.4.0)", "pytest-rerunfailures (==10.3)", "scikit-learn (>0.22.1)", "tensorboard (>=2.9.1)", "uvicorn (<0.19.1)"]
 
 [[package]]
 name = "pytz"
-version = "2022.6"
+version = "2022.7.1"
 description = "World timezone definitions, modern and historical"
 category = "main"
 optional = false
 python-versions = "*"
 
-[[package]]
-name = "pytz-deprecation-shim"
-version = "0.1.0.post0"
-description = "Shims to make deprecation of pytz easier"
-category = "dev"
-optional = false
-python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,>=2.7"
-
-[package.dependencies]
-"backports.zoneinfo" = {version = "*", markers = "python_version >= \"3.6\" and python_version < \"3.9\""}
-tzdata = {version = "*", markers = "python_version >= \"3.6\""}
-
 [[package]]
 name = "pywin32"
 version = "305"
@@ -2422,7 +2418,7 @@ python-versions = "*"
 
 [[package]]
 name = "pywinpty"
-version = "2.0.9"
+version = "2.0.10"
 description = "Pseudo terminal support for Windows from Python."
 category = "dev"
 optional = false
@@ -2438,7 +2434,7 @@ python-versions = ">=3.6"
 
 [[package]]
 name = "pyzmq"
-version = "24.0.1"
+version = "25.0.0"
 description = "Python bindings for 0MQ"
 category = "dev"
 optional = false
@@ -2446,11 +2442,10 @@ python-versions = ">=3.6"
 
 [package.dependencies]
 cffi = {version = "*", markers = "implementation_name == \"pypy\""}
-py = {version = "*", markers = "implementation_name == \"pypy\""}
 
 [[package]]
 name = "qdldl"
-version = "0.1.5.post2"
+version = "0.1.5.post3"
 description = "QDLDL, a free LDL factorization routine."
 category = "main"
 optional = false
@@ -2498,7 +2493,7 @@ test = ["pytest (>=6,!=7.0.0,!=7.0.1)", "pytest-cov (>=3.0.0)", "pytest-qt"]
 
 [[package]]
 name = "requests"
-version = "2.28.1"
+version = "2.28.2"
 description = "Python HTTP for Humans."
 category = "main"
 optional = false
@@ -2506,7 +2501,7 @@ python-versions = ">=3.7, <4"
 
 [package.dependencies]
 certifi = ">=2017.4.17"
-charset-normalizer = ">=2,<3"
+charset-normalizer = ">=2,<4"
 idna = ">=2.5,<4"
 urllib3 = ">=1.21.1,<1.27"
 
@@ -2548,27 +2543,6 @@ category = "dev"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
 
-[[package]]
-name = "rpy2"
-version = "3.5.6"
-description = "Python interface to the R language (embedded R)"
-category = "dev"
-optional = false
-python-versions = ">=3.7"
-
-[package.dependencies]
-cffi = ">=1.10.0"
-jinja2 = "*"
-packaging = {version = "*", markers = "platform_system == \"Windows\""}
-pytz = "*"
-tzlocal = "*"
-
-[package.extras]
-all = ["ipython", "numpy", "pandas", "pytest"]
-numpy = ["pandas"]
-pandas = ["numpy", "pandas"]
-test = ["ipython", "numpy", "pandas", "pytest"]
-
 [[package]]
 name = "rsa"
 version = "4.9"
@@ -2625,6 +2599,22 @@ python-versions = ">=3.8,<3.11"
 [package.dependencies]
 numpy = ">=1.17.3,<1.25.0"
 
+[[package]]
+name = "scipy"
+version = "1.9.3"
+description = "Fundamental algorithms for scientific computing in Python"
+category = "main"
+optional = false
+python-versions = ">=3.8"
+
+[package.dependencies]
+numpy = ">=1.18.5,<1.26.0"
+
+[package.extras]
+dev = ["flake8", "mypy", "pycodestyle", "typing_extensions"]
+doc = ["matplotlib (>2)", "numpydoc", "pydata-sphinx-theme (==0.9.0)", "sphinx (!=4.1.0)", "sphinx-panels (>=0.5.2)", "sphinx-tabs"]
+test = ["asv", "gmpy2", "mpmath", "pytest", "pytest-cov", "pytest-xdist", "scikit-umfpack", "threadpoolctl"]
+
 [[package]]
 name = "scs"
 version = "3.2.2"
@@ -2639,7 +2629,7 @@ scipy = ">=0.13.2"
 
 [[package]]
 name = "seaborn"
-version = "0.12.1"
+version = "0.12.2"
 description = "Statistical data visualization"
 category = "dev"
 optional = false
@@ -2647,11 +2637,11 @@ python-versions = ">=3.7"
 
 [package.dependencies]
 matplotlib = ">=3.1,<3.6.1 || >3.6.1"
-numpy = ">=1.17"
+numpy = ">=1.17,<1.24.0 || >1.24.0"
 pandas = ">=0.25"
 
 [package.extras]
-dev = ["flake8", "mypy", "pandas-stubs", "pre-commit", "pytest", "pytest-cov", "pytest-xdist"]
+dev = ["flake8", "flit", "mypy", "pandas-stubs", "pre-commit", "pytest", "pytest-cov", "pytest-xdist"]
 docs = ["ipykernel", "nbconvert", "numpydoc", "pydata_sphinx_theme (==0.10.0rc2)", "pyyaml", "sphinx-copybutton", "sphinx-design", "sphinx-issues"]
 stats = ["scipy (>=1.3)", "statsmodels (>=0.10)"]
 
@@ -2670,15 +2660,15 @@ win32 = ["pywin32"]
 
 [[package]]
 name = "setuptools"
-version = "65.6.3"
+version = "64.0.2"
 description = "Easily download, build, install, upgrade, and uninstall Python packages"
 category = "main"
 optional = false
 python-versions = ">=3.7"
 
 [package.extras]
-docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "pygments-github-lexers (==0.0.5)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-favicon", "sphinx-hoverxref (<2)", "sphinx-inline-tabs", "sphinx-notfound-page (==0.8.3)", "sphinx-reredirects", "sphinxcontrib-towncrier"]
-testing = ["build[virtualenv]", "filelock (>=3.4.0)", "flake8 (<5)", "flake8-2020", "ini2toml[lite] (>=0.9)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "pip (>=19.1)", "pip-run (>=8.8)", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-flake8", "pytest-mypy (>=0.9.1)", "pytest-perf", "pytest-timeout", "pytest-xdist", "tomli-w (>=1.0.0)", "virtualenv (>=13.0.0)", "wheel"]
+docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "pygments-github-lexers (==0.0.5)", "rst.linker (>=1.9)", "sphinx", "sphinx-favicon", "sphinx-hoverxref (<2)", "sphinx-inline-tabs", "sphinx-notfound-page (==0.8.3)", "sphinx-reredirects", "sphinxcontrib-towncrier"]
+testing = ["build[virtualenv]", "filelock (>=3.4.0)", "flake8 (<5)", "flake8-2020", "ini2toml[lite] (>=0.9)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "mock", "pip (>=19.1)", "pip-run (>=8.8)", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-flake8", "pytest-mypy (>=0.9.1)", "pytest-perf", "pytest-xdist", "tomli-w (>=1.0.0)", "virtualenv (>=13.0.0)", "wheel"]
 testing-integration = ["build[virtualenv]", "filelock (>=3.4.0)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "pytest", "pytest-enabler", "pytest-xdist", "tomli", "virtualenv (>=13.0.0)", "wheel"]
 
 [[package]]
@@ -2733,6 +2723,19 @@ category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*"
 
+[[package]]
+name = "skrebate"
+version = "0.62"
+description = "Relief-based feature selection algorithms"
+category = "dev"
+optional = false
+python-versions = "*"
+
+[package.dependencies]
+numpy = "*"
+scikit-learn = "*"
+scipy = "*"
+
 [[package]]
 name = "slicer"
 version = "0.0.7"
@@ -2793,7 +2796,7 @@ python-versions = ">=3.6"
 
 [[package]]
 name = "spacy"
-version = "3.4.4"
+version = "3.5.0"
 description = "Industrial-strength Natural Language Processing (NLP) in Python"
 category = "main"
 optional = true
@@ -2807,19 +2810,19 @@ langcodes = ">=3.2.0,<4.0.0"
 murmurhash = ">=0.28.0,<1.1.0"
 numpy = ">=1.15.0"
 packaging = ">=20.0"
-pathy = ">=0.3.5"
+pathy = ">=0.10.0"
 preshed = ">=3.0.2,<3.1.0"
 pydantic = ">=1.7.4,<1.8 || >1.8,<1.8.1 || >1.8.1,<1.11.0"
 requests = ">=2.13.0,<3.0.0"
 setuptools = "*"
 smart-open = ">=5.2.1,<7.0.0"
-spacy-legacy = ">=3.0.10,<3.1.0"
+spacy-legacy = ">=3.0.11,<3.1.0"
 spacy-loggers = ">=1.0.0,<2.0.0"
 srsly = ">=2.4.3,<3.0.0"
 thinc = ">=8.1.0,<8.2.0"
 tqdm = ">=4.38.0,<5.0.0"
 typer = ">=0.3.0,<0.8.0"
-wasabi = ">=0.9.1,<1.1.0"
+wasabi = ">=0.9.1,<1.2.0"
 
 [package.extras]
 apple = ["thinc-apple-ops (>=0.1.0.dev0,<1.0.0)"]
@@ -2846,11 +2849,11 @@ ko = ["natto-py (>=0.9.0)"]
 lookups = ["spacy-lookups-data (>=1.0.3,<1.1.0)"]
 ray = ["spacy-ray (>=0.1.0,<1.0.0)"]
 th = ["pythainlp (>=2.0)"]
-transformers = ["spacy-transformers (>=1.1.2,<1.2.0)"]
+transformers = ["spacy-transformers (>=1.1.2,<1.3.0)"]
 
 [[package]]
 name = "spacy-legacy"
-version = "3.0.10"
+version = "3.0.12"
 description = "Legacy registered functions for spaCy backwards compatibility"
 category = "main"
 optional = true
@@ -2967,11 +2970,11 @@ dev = ["bump2version", "sphinxcontrib-httpdomain", "transifex-client", "wheel"]
 
 [[package]]
 name = "sphinxcontrib-applehelp"
-version = "1.0.2"
-description = "sphinxcontrib-applehelp is a sphinx extension which outputs Apple help books"
+version = "1.0.4"
+description = "sphinxcontrib-applehelp is a Sphinx extension which outputs Apple help books"
 category = "main"
 optional = false
-python-versions = ">=3.5"
+python-versions = ">=3.8"
 
 [package.extras]
 lint = ["docutils-stubs", "flake8", "mypy"]
@@ -3139,7 +3142,7 @@ doc = ["reno", "sphinx", "tornado (>=4.5)"]
 
 [[package]]
 name = "tensorboard"
-version = "2.11.0"
+version = "2.11.2"
 description = "TensorBoard lets you watch Tensors Flow"
 category = "dev"
 optional = false
@@ -3176,18 +3179,6 @@ category = "dev"
 optional = false
 python-versions = "*"
 
-[[package]]
-name = "tensorboardx"
-version = "2.5.1"
-description = "TensorBoardX lets you watch Tensors Flow without Tensorflow"
-category = "dev"
-optional = false
-python-versions = "*"
-
-[package.dependencies]
-numpy = "*"
-protobuf = ">=3.8.0,<=3.20.1"
-
 [[package]]
 name = "tensorflow"
 version = "2.11.0"
@@ -3229,11 +3220,11 @@ python-versions = ">=3.7"
 
 [[package]]
 name = "tensorflow-io-gcs-filesystem"
-version = "0.28.0"
+version = "0.30.0"
 description = "TensorFlow IO"
 category = "dev"
 optional = false
-python-versions = ">=3.7, <3.11"
+python-versions = ">=3.7, <3.12"
 
 [package.extras]
 tensorflow = ["tensorflow (>=2.11.0,<2.12.0)"]
@@ -3244,7 +3235,7 @@ tensorflow-rocm = ["tensorflow-rocm (>=2.11.0,<2.12.0)"]
 
 [[package]]
 name = "termcolor"
-version = "2.1.1"
+version = "2.2.0"
 description = "ANSI color formatting for output in terminal"
 category = "dev"
 optional = false
@@ -3272,7 +3263,7 @@ test = ["pre-commit", "pytest (>=7.0)", "pytest-timeout"]
 
 [[package]]
 name = "thinc"
-version = "8.1.5"
+version = "8.1.7"
 description = "A refreshing functional take on deep learning, compatible with your favorite libraries"
 category = "main"
 optional = true
@@ -3285,11 +3276,12 @@ confection = ">=0.0.1,<1.0.0"
 cymem = ">=2.0.2,<2.1.0"
 murmurhash = ">=1.0.2,<1.1.0"
 numpy = ">=1.15.0"
+packaging = ">=20.0"
 preshed = ">=3.0.2,<3.1.0"
 pydantic = ">=1.7.4,<1.8 || >1.8,<1.8.1 || >1.8.1,<1.11.0"
 setuptools = "*"
 srsly = ">=2.4.0,<3.0.0"
-wasabi = ">=0.8.1,<1.1.0"
+wasabi = ">=0.8.1,<1.2.0"
 
 [package.extras]
 cuda = ["cupy (>=5.0.0b4)"]
@@ -3375,7 +3367,7 @@ typing-extensions = "*"
 
 [[package]]
 name = "torchmetrics"
-version = "0.11.0"
+version = "0.11.1"
 description = "PyTorch native Metrics"
 category = "dev"
 optional = false
@@ -3443,7 +3435,7 @@ telegram = ["requests"]
 
 [[package]]
 name = "traitlets"
-version = "5.7.1"
+version = "5.9.0"
 description = "Traitlets Python configuration system"
 category = "dev"
 optional = false
@@ -3451,9 +3443,7 @@ python-versions = ">=3.7"
 
 [package.extras]
 docs = ["myst-parser", "pydata-sphinx-theme", "sphinx"]
-lint = ["black (>=22.6.0)", "mdformat (>0.7)", "ruff (>=0.0.156)"]
-test = ["pre-commit", "pytest"]
-typing = ["mypy (>=0.990)"]
+test = ["argcomplete (>=2.0)", "pre-commit", "pytest", "pytest-mock"]
 
 [[package]]
 name = "typer"
@@ -3480,31 +3470,6 @@ category = "main"
 optional = false
 python-versions = ">=3.7"
 
-[[package]]
-name = "tzdata"
-version = "2022.7"
-description = "Provider of IANA time zone data"
-category = "dev"
-optional = false
-python-versions = ">=2"
-
-[[package]]
-name = "tzlocal"
-version = "4.2"
-description = "tzinfo object for the local timezone"
-category = "dev"
-optional = false
-python-versions = ">=3.6"
-
-[package.dependencies]
-"backports.zoneinfo" = {version = "*", markers = "python_version < \"3.9\""}
-pytz-deprecation-shim = "*"
-tzdata = {version = "*", markers = "platform_system == \"Windows\""}
-
-[package.extras]
-devenv = ["black", "pyroma", "pytest-cov", "zest.releaser"]
-test = ["pytest (>=4.3)", "pytest-mock (>=3.3)"]
-
 [[package]]
 name = "uri-template"
 version = "1.2.0"
@@ -3518,7 +3483,7 @@ dev = ["flake8 (<4.0.0)", "flake8-annotations", "flake8-bugbear", "flake8-commas
 
 [[package]]
 name = "urllib3"
-version = "1.26.13"
+version = "1.26.14"
 description = "HTTP library with thread-safe connection pooling, file post, and more."
 category = "main"
 optional = false
@@ -3531,15 +3496,18 @@ socks = ["PySocks (>=1.5.6,!=1.5.7,<2.0)"]
 
 [[package]]
 name = "wasabi"
-version = "0.10.1"
+version = "1.1.1"
 description = "A lightweight console printing and formatting toolkit"
 category = "main"
 optional = true
-python-versions = "*"
+python-versions = ">=3.6"
+
+[package.dependencies]
+colorama = {version = ">=0.4.6", markers = "sys_platform == \"win32\" and python_version >= \"3.7\""}
 
 [[package]]
 name = "wcwidth"
-version = "0.2.5"
+version = "0.2.6"
 description = "Measures the displayed width of unicode strings in a terminal"
 category = "dev"
 optional = false
@@ -3563,7 +3531,7 @@ python-versions = "*"
 
 [[package]]
 name = "websocket-client"
-version = "1.4.2"
+version = "1.5.0"
 description = "WebSocket client for Python with low level API options"
 category = "dev"
 optional = false
@@ -3601,7 +3569,7 @@ test = ["pytest (>=3.0.0)"]
 
 [[package]]
 name = "widgetsnbextension"
-version = "4.0.4"
+version = "4.0.5"
 description = "Jupyter interactive widgets for Jupyter Notebook"
 category = "dev"
 optional = false
@@ -3617,7 +3585,7 @@ python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,>=2.7"
 
 [[package]]
 name = "xgboost"
-version = "1.7.2"
+version = "1.7.3"
 description = "XGBoost Python Package"
 category = "main"
 optional = false
@@ -3660,14 +3628,14 @@ heapdict = "*"
 
 [[package]]
 name = "zipp"
-version = "3.11.0"
+version = "3.12.0"
 description = "Backport of pathlib-compatible object wrapper for zip files"
 category = "main"
 optional = false
 python-versions = ">=3.7"
 
 [package.extras]
-docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)"]
+docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-lint"]
 testing = ["flake8 (<5)", "func-timeout", "jaraco.functools", "jaraco.itertools", "more-itertools", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-flake8", "pytest-mypy (>=0.9.1)"]
 
 [extras]
@@ -3679,109 +3647,55 @@ pygraphviz = ["pygraphviz"]
 [metadata]
 lock-version = "1.1"
 python-versions = ">=3.8,<3.11"
-content-hash = "271fd87e09cb913b4541d1c4447cd7ee4cc4664cf94522d10bd18536e036c91e"
+content-hash = "fe8ffa70c8f29107871f71e42d3e9e19eacaa1cd0d9623c954a84dc1cb63442b"
 
 [metadata.files]
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+    {file = "thinc-8.1.7-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:d38c6c46f3ce34c48fc8abe8c25cdf8d9eabd5256d88dc7d77d5fcb60e8a41b6"},
+    {file = "thinc-8.1.7-cp39-cp39-win_amd64.whl", hash = "sha256:618a7942edc35d6a5ee79012c3d8f3aadbd466760ea94bc7529239b15c5c4a22"},
+    {file = "thinc-8.1.7.tar.gz", hash = "sha256:0f08f6d1fc50e28bf18814ca2b1c807cd4d59a930d713459a675e086c4779af9"},
 ]
 threadpoolctl = [
     {file = "threadpoolctl-3.1.0-py3-none-any.whl", hash = "sha256:8b99adda265feb6773280df41eece7b2e6561b772d21ffd52e372f999024907b"},
@@ -6255,8 +6197,8 @@ torch = [
     {file = "torch-1.12.1-cp39-none-macosx_11_0_arm64.whl", hash = "sha256:69fe2cae7c39ccadd65a123793d30e0db881f1c1927945519c5c17323131437e"},
 ]
 torchmetrics = [
-    {file = "torchmetrics-0.11.0-py3-none-any.whl", hash = "sha256:f809c3cb86a0bd3d8743df0888040257e20d371a937ff9114f582a60ce1a1c67"},
-    {file = "torchmetrics-0.11.0.tar.gz", hash = "sha256:c838e0491d80775daadd0802e27ae3af112a52086c9ba8cbcd1e2807243c89ac"},
+    {file = "torchmetrics-0.11.1-py3-none-any.whl", hash = "sha256:9987d7c21b081cceef246a72be1ce25bf29c842764f59dda54f59e3b4cd1970b"},
+    {file = "torchmetrics-0.11.1.tar.gz", hash = "sha256:de2e9feb3316f798ab08b318302ff04e764f47e691f0847f780044279fa176ca"},
 ]
 torchvision = [
     {file = "torchvision-0.13.1-cp310-cp310-macosx_10_9_x86_64.whl", hash = "sha256:19286a733c69dcbd417b86793df807bd227db5786ed787c17297741a9b0d0fc7"},
@@ -6297,8 +6239,8 @@ tqdm = [
     {file = "tqdm-4.64.1.tar.gz", hash = "sha256:5f4f682a004951c1b450bc753c710e9280c5746ce6ffedee253ddbcbf54cf1e4"},
 ]
 traitlets = [
-    {file = "traitlets-5.7.1-py3-none-any.whl", hash = "sha256:57ba2ba951632eeab9388fa45f342a5402060a5cc9f0bb942f760fafb6641581"},
-    {file = "traitlets-5.7.1.tar.gz", hash = "sha256:fde8f62c05204ead43c2c1b9389cfc85befa7f54acb5da28529d671175bb4108"},
+    {file = "traitlets-5.9.0-py3-none-any.whl", hash = "sha256:9e6ec080259b9a5940c797d58b613b5e31441c2257b87c2e795c5228ae80d2d8"},
+    {file = "traitlets-5.9.0.tar.gz", hash = "sha256:f6cde21a9c68cf756af02035f72d5a723bf607e862e7be33ece505abf4a3bad9"},
 ]
 typer = [
     {file = "typer-0.7.0-py3-none-any.whl", hash = "sha256:b5e704f4e48ec263de1c0b3a2387cd405a13767d2f907f44c1a08cbad96f606d"},
@@ -6308,29 +6250,21 @@ typing-extensions = [
     {file = "typing_extensions-4.4.0-py3-none-any.whl", hash = "sha256:16fa4864408f655d35ec496218b85f79b3437c829e93320c7c9215ccfd92489e"},
     {file = "typing_extensions-4.4.0.tar.gz", hash = "sha256:1511434bb92bf8dd198c12b1cc812e800d4181cfcb867674e0f8279cc93087aa"},
 ]
-tzdata = [
-    {file = "tzdata-2022.7-py2.py3-none-any.whl", hash = "sha256:2b88858b0e3120792a3c0635c23daf36a7d7eeeca657c323da299d2094402a0d"},
-    {file = "tzdata-2022.7.tar.gz", hash = "sha256:fe5f866eddd8b96e9fcba978f8e503c909b19ea7efda11e52e39494bad3a7bfa"},
-]
-tzlocal = [
-    {file = "tzlocal-4.2-py3-none-any.whl", hash = "sha256:89885494684c929d9191c57aa27502afc87a579be5cdd3225c77c463ea043745"},
-    {file = "tzlocal-4.2.tar.gz", hash = "sha256:ee5842fa3a795f023514ac2d801c4a81d1743bbe642e3940143326b3a00addd7"},
-]
 uri-template = [
     {file = "uri_template-1.2.0-py3-none-any.whl", hash = "sha256:f1699c77b73b925cf4937eae31ab282a86dc885c333f2e942513f08f691fc7db"},
     {file = "uri_template-1.2.0.tar.gz", hash = "sha256:934e4d09d108b70eb8a24410af8615294d09d279ce0e7cbcdaef1bd21f932b06"},
 ]
 urllib3 = [
-    {file = "urllib3-1.26.13-py2.py3-none-any.whl", hash = "sha256:47cc05d99aaa09c9e72ed5809b60e7ba354e64b59c9c173ac3018642d8bb41fc"},
-    {file = "urllib3-1.26.13.tar.gz", hash = "sha256:c083dd0dce68dbfbe1129d5271cb90f9447dea7d52097c6e0126120c521ddea8"},
+    {file = "urllib3-1.26.14-py2.py3-none-any.whl", hash = "sha256:75edcdc2f7d85b137124a6c3c9fc3933cdeaa12ecb9a6a959f22797a0feca7e1"},
+    {file = "urllib3-1.26.14.tar.gz", hash = "sha256:076907bf8fd355cde77728471316625a4d2f7e713c125f51953bb5b3eecf4f72"},
 ]
 wasabi = [
-    {file = "wasabi-0.10.1-py3-none-any.whl", hash = "sha256:fe862cc24034fbc9f04717cd312ab884f71f51a8ecabebc3449b751c2a649d83"},
-    {file = "wasabi-0.10.1.tar.gz", hash = "sha256:c8e372781be19272942382b14d99314d175518d7822057cb7a97010c4259d249"},
+    {file = "wasabi-1.1.1-py3-none-any.whl", hash = "sha256:32e44649d99a64e08e40c1c96cddb69fad460bd0cc33802a53cab6714dfb73f8"},
+    {file = "wasabi-1.1.1.tar.gz", hash = "sha256:f5ee7c609027811bd16e620f2fd7a7319466005848e41b051a62053ab8fd70d6"},
 ]
 wcwidth = [
-    {file = "wcwidth-0.2.5-py2.py3-none-any.whl", hash = "sha256:beb4802a9cebb9144e99086eff703a642a13d6a0052920003a230f3294bbe784"},
-    {file = "wcwidth-0.2.5.tar.gz", hash = "sha256:c4d647b99872929fdb7bdcaa4fbe7f01413ed3d98077df798530e5b04f116c83"},
+    {file = "wcwidth-0.2.6-py2.py3-none-any.whl", hash = "sha256:795b138f6875577cd91bba52baf9e445cd5118fd32723b460e30a0af30ea230e"},
+    {file = "wcwidth-0.2.6.tar.gz", hash = "sha256:a5220780a404dbe3353789870978e472cfe477761f06ee55077256e509b156d0"},
 ]
 webcolors = [
     {file = "webcolors-1.12-py3-none-any.whl", hash = "sha256:d98743d81d498a2d3eaf165196e65481f0d2ea85281463d856b1e51b09f62dce"},
@@ -6341,8 +6275,8 @@ webencodings = [
     {file = "webencodings-0.5.1.tar.gz", hash = "sha256:b36a1c245f2d304965eb4e0a82848379241dc04b865afcc4aab16748587e1923"},
 ]
 websocket-client = [
-    {file = "websocket-client-1.4.2.tar.gz", hash = "sha256:d6e8f90ca8e2dd4e8027c4561adeb9456b54044312dba655e7cae652ceb9ae59"},
-    {file = "websocket_client-1.4.2-py3-none-any.whl", hash = "sha256:d6b06432f184438d99ac1f456eaf22fe1ade524c3dd16e661142dc54e9cba574"},
+    {file = "websocket-client-1.5.0.tar.gz", hash = "sha256:561ca949e5bbb5d33409a37235db55c279235c78ee407802f1d2314fff8a8536"},
+    {file = "websocket_client-1.5.0-py3-none-any.whl", hash = "sha256:fb5d81b95d350f3a54838ebcb4c68a5353bbd1412ae8f068b1e5280faeb13074"},
 ]
 werkzeug = [
     {file = "Werkzeug-2.2.2-py3-none-any.whl", hash = "sha256:f979ab81f58d7318e064e99c4506445d60135ac5cd2e177a2de0089bfd4c9bd5"},
@@ -6353,8 +6287,8 @@ wheel = [
     {file = "wheel-0.38.4.tar.gz", hash = "sha256:965f5259b566725405b05e7cf774052044b1ed30119b5d586b2703aafe8719ac"},
 ]
 widgetsnbextension = [
-    {file = "widgetsnbextension-4.0.4-py3-none-any.whl", hash = "sha256:fa0e840719ec95dd2ec85c3a48913f1a0c29d323eacbcdb0b29bfed0cc6da678"},
-    {file = "widgetsnbextension-4.0.4.tar.gz", hash = "sha256:44c69f18237af0f610557d6c1c7ef76853f5856a0e604c0a517f2320566bb775"},
+    {file = "widgetsnbextension-4.0.5-py3-none-any.whl", hash = "sha256:eaaaf434fb9b08bd197b2a14ffe45ddb5ac3897593d43c69287091e5f3147bf7"},
+    {file = "widgetsnbextension-4.0.5.tar.gz", hash = "sha256:003f716d930d385be3fd9de42dd9bf008e30053f73bddde235d14fbeaeff19af"},
 ]
 wrapt = [
     {file = "wrapt-1.14.1-cp27-cp27m-macosx_10_9_x86_64.whl", hash = "sha256:1b376b3f4896e7930f1f772ac4b064ac12598d1c38d04907e696cc4d794b43d3"},
@@ -6423,12 +6357,12 @@ wrapt = [
     {file = "wrapt-1.14.1.tar.gz", hash = "sha256:380a85cf89e0e69b7cfbe2ea9f765f004ff419f34194018a6827ac0e3edfed4d"},
 ]
 xgboost = [
-    {file = "xgboost-1.7.2-py3-none-macosx_10_15_x86_64.macosx_11_0_x86_64.macosx_12_0_x86_64.whl", hash = "sha256:011126d470179177486e92c6a52c3f5deb9dd3e07a65eec5df9bf7dd1a70d2d0"},
-    {file = "xgboost-1.7.2-py3-none-macosx_12_0_arm64.whl", hash = "sha256:a3cf6d2e6e56147546a725d8301f06af33b8467179e17b11f63be9a6d7a9ccd3"},
-    {file = "xgboost-1.7.2-py3-none-manylinux2014_aarch64.whl", hash = "sha256:6f192542fbee7f07891a3b78616ef1f87013e22e33836507344a230188db784e"},
-    {file = "xgboost-1.7.2-py3-none-manylinux2014_x86_64.whl", hash = "sha256:51351d0a5e26016c348df23cdb2069a26bf41a9e586a24e552078435a110510a"},
-    {file = "xgboost-1.7.2-py3-none-win_amd64.whl", hash = "sha256:08ca6b3400dfd16f6159b2881f41b7443024339c14c5dbe10bba117af79126ab"},
-    {file = "xgboost-1.7.2.tar.gz", hash = "sha256:f1a749aedb9330afc48007cc78b8bbbbea35ce372f48a2735f9c71bbc7b8dcfb"},
+    {file = "xgboost-1.7.3-py3-none-macosx_10_15_x86_64.macosx_11_0_x86_64.macosx_12_0_x86_64.whl", hash = "sha256:4a8985b2a874bd65b31869c325bb80051a2c28cedc16805928e2dcfb55fa25ce"},
+    {file = "xgboost-1.7.3-py3-none-macosx_12_0_arm64.whl", hash = "sha256:86dfc7d7da6fae751dc5c316e862f3395d9eddef5d10622a43d47deceb3257df"},
+    {file = "xgboost-1.7.3-py3-none-manylinux2014_aarch64.whl", hash = "sha256:457fa32b39b8bfa8a94eea6b932cb4d945c7a41fcd26e69a1f1dd843179eaccc"},
+    {file = "xgboost-1.7.3-py3-none-manylinux2014_x86_64.whl", hash = "sha256:fab7aeb508f0dbbd4dc7a4569a80ed07632bca3bd91b5490d043d4a33b138a39"},
+    {file = "xgboost-1.7.3-py3-none-win_amd64.whl", hash = "sha256:719e13ac9246b297fb93dd4ee772947f6ec693c46f1adb8cdeb3d3e98e5c08fb"},
+    {file = "xgboost-1.7.3.tar.gz", hash = "sha256:d1ee270b67e8fc5b90002e17493d1c910ae6abe856e6d0d86c619c0002e7c7d1"},
 ]
 yarl = [
     {file = "yarl-1.8.2-cp310-cp310-macosx_10_9_universal2.whl", hash = "sha256:bb81f753c815f6b8e2ddd2eef3c855cf7da193b82396ac013c661aaa6cc6b0a5"},
@@ -6511,6 +6445,6 @@ zict = [
     {file = "zict-2.2.0.tar.gz", hash = "sha256:d7366c2e2293314112dcf2432108428a67b927b00005619feefc310d12d833f3"},
 ]
 zipp = [
-    {file = "zipp-3.11.0-py3-none-any.whl", hash = "sha256:83a28fcb75844b5c0cdaf5aa4003c2d728c77e05f5aeabe8e95e56727005fbaa"},
-    {file = "zipp-3.11.0.tar.gz", hash = "sha256:a7a22e05929290a67401440b39690ae6563279bced5f314609d9d03798f56766"},
+    {file = "zipp-3.12.0-py3-none-any.whl", hash = "sha256:9eb0a4c5feab9b08871db0d672745b53450d7f26992fd1e4653aa43345e97b86"},
+    {file = "zipp-3.12.0.tar.gz", hash = "sha256:73efd63936398aac78fd92b6f4865190119d6c91b531532e798977ea8dd402eb"},
 ]
diff --git a/pyproject.toml b/pyproject.toml
index cf317f24f..199d7e4e9 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -101,7 +101,6 @@ optional = true
 #
 # Dependencies for Documentation Generation
 #
-rpy2 = "^3.5.2"
 sphinx = "^5.3.0"
 sphinxcontrib-googleanalytics = { git = "https://github.com/sphinx-contrib/googleanalytics.git", branch = "master" }
 nbsphinx = "^0.8.9"
@@ -111,6 +110,7 @@ ipykernel = "^6.15.1"
 sphinx-copybutton = "0.5.0"
 seaborn = "^0.12.1"
 tensorflow = "^2.11.0"
+cdt ="^0.6.0"
 
 #
 # Versions defined for security reasons
diff --git a/tests/test_notebooks.py b/tests/test_notebooks.py
index 9f2221c96..5ace3d7c6 100644
--- a/tests/test_notebooks.py
+++ b/tests/test_notebooks.py
@@ -11,7 +11,6 @@ notebooks_list = [f.name for f in os.scandir(NOTEBOOKS_PATH) if f.name.endswith(
 advanced_notebooks = [
     # requires stdin input for identify in weighting sampler
     "do_sampler_demo.ipynb",
-    # requires Rpy2 for lalonde
     "dowhy_refutation_testing.ipynb",
     "dowhy_lalonde_example.ipynb",
     "lalonde_pandas_api.ipynb",
@@ -27,11 +26,10 @@ advanced_notebooks = [
     "dowhy_twins_example.ipynb",
 ]
 
+# TODO: should probably move more notebooks here to ignore, because
+#       most get tested by the documentation generation.
 ignore_notebooks = [
-    # requires Rpy2 for causal discovery
-    # daily tests of dowhy_causal_discovery_example.ipynb are failing due to cdt/rpy2 config.
-    # comment out, since we are switching causal discovery implementations
-    "dowhy_causal_discovery_example.ipynb"
+    "dowhy_causal_discovery_example.ipynb",  # This is being tested as part of documentation generation
 ]
 
 # Adding the dowhy root folder to the python path so that jupyter notebooks