From d4ea6a3c995a12b3a8b936fa5c55ab3eaa2efa4a Mon Sep 17 00:00:00 2001
From: Sierra Taylor Moxon <sierra.taylor@gmail.com>
Date: Mon, 3 Oct 2022 08:48:21 -0700
Subject: [PATCH] update dependency

---
 poetry.lock    | 1164 ++++++++++++++++++++++++++++++++++++------------
 pyproject.toml |    4 +-
 2 files changed, 883 insertions(+), 285 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 07fff23..d011f4a 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -14,17 +14,9 @@ category = "main"
 optional = false
 python-versions = "*"
 
-[[package]]
-name = "argparse"
-version = "1.4.0"
-description = "Python command-line parsing library"
-category = "main"
-optional = false
-python-versions = "*"
-
 [[package]]
 name = "atomicwrites"
-version = "1.4.0"
+version = "1.4.1"
 description = "Atomic file writes."
 category = "dev"
 optional = false
@@ -32,36 +24,36 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 
 [[package]]
 name = "attrs"
-version = "21.4.0"
+version = "22.1.0"
 description = "Classes Without Boilerplate"
 category = "main"
 optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
+python-versions = ">=3.5"
 
 [package.extras]
-dev = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "mypy", "pytest-mypy-plugins", "zope.interface", "furo", "sphinx", "sphinx-notfound-page", "pre-commit", "cloudpickle"]
+dev = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "mypy (>=0.900,!=0.940)", "pytest-mypy-plugins", "zope.interface", "furo", "sphinx", "sphinx-notfound-page", "pre-commit", "cloudpickle"]
 docs = ["furo", "sphinx", "zope.interface", "sphinx-notfound-page"]
-tests = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "mypy", "pytest-mypy-plugins", "zope.interface", "cloudpickle"]
-tests_no_zope = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "mypy", "pytest-mypy-plugins", "cloudpickle"]
+tests = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "mypy (>=0.900,!=0.940)", "pytest-mypy-plugins", "zope.interface", "cloudpickle"]
+tests_no_zope = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "mypy (>=0.900,!=0.940)", "pytest-mypy-plugins", "cloudpickle"]
 
 [[package]]
 name = "babel"
-version = "2.9.1"
+version = "2.10.3"
 description = "Internationalization utilities"
 category = "main"
 optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
+python-versions = ">=3.6"
 
 [package.dependencies]
 pytz = ">=2015.7"
 
 [[package]]
 name = "beautifulsoup4"
-version = "4.10.0"
+version = "4.11.1"
 description = "Screen-scraping library"
 category = "main"
 optional = false
-python-versions = ">3.0.0"
+python-versions = ">=3.6.0"
 
 [package.dependencies]
 soupsieve = ">1.2"
@@ -72,7 +64,7 @@ lxml = ["lxml"]
 
 [[package]]
 name = "bioregistry"
-version = "0.4.36"
+version = "0.5.117"
 description = "Integrated registry of biological databases and nomenclatures"
 category = "main"
 optional = false
@@ -80,6 +72,7 @@ python-versions = ">=3.6"
 
 [package.dependencies]
 click = "*"
+curies = "*"
 more-click = "*"
 pydantic = "*"
 pystow = ">=0.1.13"
@@ -87,30 +80,30 @@ requests = "*"
 tqdm = "*"
 
 [package.extras]
-align = ["beautifulsoup4", "tabulate", "defusedxml"]
-charts = ["matplotlib", "matplotlib-venn", "seaborn"]
-docs = ["sphinx", "sphinx-rtd-theme", "sphinx-click", "sphinx-autodoc-typehints", "sphinx-automodapi"]
-export = ["pyyaml", "rdflib", "rdflib-jsonld"]
+align = ["pyyaml", "beautifulsoup4", "tabulate", "defusedxml", "class-resolver"]
+charts = ["matplotlib", "matplotlib-venn", "seaborn", "pandas"]
+docs = ["sphinx", "sphinx-rtd-theme", "sphinx-click", "sphinx-autodoc-typehints", "sphinx-automodapi", "autodoc-pydantic"]
+export = ["pyyaml", "rdflib", "rdflib-jsonld", "ndex2"]
 gha = ["more-itertools"]
-health = ["click-default-group", "pandas"]
+health = ["click-default-group", "pandas", "tabulate", "pyyaml"]
 tests = ["coverage", "pytest", "more-itertools"]
-web = ["pyyaml", "rdflib", "rdflib-jsonld", "flask", "flasgger", "bootstrap-flask"]
+web = ["pyyaml", "rdflib", "rdflib-jsonld", "flask", "flasgger", "bootstrap-flask (<=2.0.0)", "markdown"]
 
 [[package]]
 name = "cachetools"
-version = "4.2.4"
+version = "5.2.0"
 description = "Extensible memoizing collections and decorators"
 category = "main"
 optional = false
-python-versions = "~=3.5"
+python-versions = "~=3.7"
 
 [[package]]
 name = "certifi"
-version = "2021.10.8"
+version = "2022.9.24"
 description = "Python package for providing Mozilla's CA Bundle."
 category = "main"
 optional = false
-python-versions = "*"
+python-versions = ">=3.6"
 
 [[package]]
 name = "cfgraph"
@@ -125,34 +118,37 @@ rdflib = ">=0.4.2"
 
 [[package]]
 name = "chardet"
-version = "4.0.0"
-description = "Universal encoding detector for Python 2 and 3"
+version = "5.0.0"
+description = "Universal encoding detector for Python 3"
 category = "main"
 optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
+python-versions = ">=3.6"
 
 [[package]]
 name = "charset-normalizer"
-version = "2.0.10"
+version = "2.1.1"
 description = "The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet."
 category = "main"
 optional = false
-python-versions = ">=3.5.0"
+python-versions = ">=3.6.0"
 
 [package.extras]
 unicode_backport = ["unicodedata2"]
 
 [[package]]
 name = "click"
-version = "7.1.2"
+version = "8.1.3"
 description = "Composable command line interface toolkit"
 category = "main"
 optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
+python-versions = ">=3.7"
+
+[package.dependencies]
+colorama = {version = "*", markers = "platform_system == \"Windows\""}
 
 [[package]]
 name = "colorama"
-version = "0.4.4"
+version = "0.4.5"
 description = "Cross-platform colored terminal text."
 category = "main"
 optional = false
@@ -160,15 +156,32 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
 
 [[package]]
 name = "coverage"
-version = "6.2"
+version = "6.5.0"
 description = "Code coverage measurement for Python"
 category = "dev"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.7"
 
 [package.extras]
 toml = ["tomli"]
 
+[[package]]
+name = "curies"
+version = "0.3.0"
+description = "Idiomatic conversion between URIs and compact URIs (CURIEs)."
+category = "main"
+optional = false
+python-versions = ">=3.7"
+
+[package.dependencies]
+pytrie = "*"
+requests = "*"
+
+[package.extras]
+tests = ["coverage", "pytest"]
+pandas = ["pandas"]
+docs = ["sphinx-automodapi", "sphinx-autodoc-typehints", "sphinx-rtd-theme", "sphinx"]
+
 [[package]]
 name = "daff"
 version = "1.3.46"
@@ -199,13 +212,21 @@ wrapt = ">=1.10,<2"
 [package.extras]
 dev = ["tox", "bump2version (<1)", "sphinx (<2)", "importlib-metadata (<3)", "importlib-resources (<4)", "configparser (<5)", "sphinxcontrib-websupport (<2)", "zipp (<2)", "PyTest (<5)", "PyTest-Cov (<2.6)", "pytest", "pytest-cov"]
 
+[[package]]
+name = "distlib"
+version = "0.3.6"
+description = "Distribution utilities"
+category = "main"
+optional = false
+python-versions = "*"
+
 [[package]]
 name = "docutils"
-version = "0.17.1"
+version = "0.19"
 description = "Docutils -- Python Documentation Utilities"
 category = "main"
 optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
+python-versions = ">=3.7"
 
 [[package]]
 name = "et-xmlfile"
@@ -215,9 +236,21 @@ category = "main"
 optional = false
 python-versions = ">=3.6"
 
+[[package]]
+name = "filelock"
+version = "3.8.0"
+description = "A platform independent file lock."
+category = "main"
+optional = false
+python-versions = ">=3.7"
+
+[package.extras]
+docs = ["furo (>=2022.6.21)", "sphinx (>=5.1.1)", "sphinx-autodoc-typehints (>=1.19.1)"]
+testing = ["covdefaults (>=2.2)", "coverage (>=6.4.2)", "pytest (>=7.1.2)", "pytest-cov (>=3)", "pytest-timeout (>=2.1)"]
+
 [[package]]
 name = "ghp-import"
-version = "2.0.2"
+version = "2.1.0"
 description = "Copy your docs directly to the gh-pages branch."
 category = "dev"
 optional = false
@@ -227,7 +260,7 @@ python-versions = "*"
 python-dateutil = ">=2.8.1"
 
 [package.extras]
-dev = ["wheel", "flake8", "markdown", "twine"]
+dev = ["twine", "markdown", "flake8", "wheel"]
 
 [[package]]
 name = "google"
@@ -242,54 +275,55 @@ beautifulsoup4 = "*"
 
 [[package]]
 name = "google-api-core"
-version = "2.3.2"
+version = "2.10.1"
 description = "Google API client core library"
 category = "main"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.7"
 
 [package.dependencies]
 google-auth = ">=1.25.0,<3.0dev"
-googleapis-common-protos = ">=1.52.0,<2.0dev"
-protobuf = ">=3.12.0"
+googleapis-common-protos = ">=1.56.2,<2.0dev"
+protobuf = ">=3.20.1,<5.0.0dev"
 requests = ">=2.18.0,<3.0.0dev"
 
 [package.extras]
 grpc = ["grpcio (>=1.33.2,<2.0dev)", "grpcio-status (>=1.33.2,<2.0dev)"]
-grpcgcp = ["grpcio-gcp (>=0.2.2)"]
-grpcio-gcp = ["grpcio-gcp (>=0.2.2)"]
+grpcgcp = ["grpcio-gcp (>=0.2.2,<1.0dev)"]
+grpcio-gcp = ["grpcio-gcp (>=0.2.2,<1.0dev)"]
 
 [[package]]
 name = "google-api-python-client"
-version = "2.34.0"
+version = "2.63.0"
 description = "Google API Client Library for Python"
 category = "main"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.7"
 
 [package.dependencies]
-google-api-core = ">=1.21.0,<3.0.0dev"
-google-auth = ">=1.16.0,<3.0.0dev"
+google-api-core = ">=1.31.5,<2.0.0 || >2.3.0,<3.0.0dev"
+google-auth = ">=1.19.0,<3.0.0dev"
 google-auth-httplib2 = ">=0.1.0"
 httplib2 = ">=0.15.0,<1dev"
 uritemplate = ">=3.0.1,<5"
 
 [[package]]
 name = "google-auth"
-version = "2.3.3"
+version = "2.12.0"
 description = "Google Authentication Library"
 category = "main"
 optional = false
 python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*"
 
 [package.dependencies]
-cachetools = ">=2.0.0,<5.0"
+cachetools = ">=2.0.0,<6.0"
 pyasn1-modules = ">=0.2.1"
 rsa = {version = ">=3.1.4,<5", markers = "python_version >= \"3.6\""}
 six = ">=1.9.0"
 
 [package.extras]
 aiohttp = ["requests (>=2.20.0,<3.0.0dev)", "aiohttp (>=3.6.2,<4.0.0dev)"]
+enterprise_cert = ["cryptography (==36.0.2)", "pyopenssl (==22.0.0)"]
 pyopenssl = ["pyopenssl (>=20.0.0)"]
 reauth = ["pyu2f (>=0.1.5)"]
 
@@ -308,7 +342,7 @@ six = "*"
 
 [[package]]
 name = "google-auth-oauthlib"
-version = "0.4.6"
+version = "0.5.3"
 description = "Google Authentication Library"
 category = "main"
 optional = false
@@ -323,34 +357,34 @@ tool = ["click (>=6.0.0)"]
 
 [[package]]
 name = "googleapis-common-protos"
-version = "1.54.0"
+version = "1.56.4"
 description = "Common protobufs used in Google APIs"
 category = "main"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.7"
 
 [package.dependencies]
-protobuf = ">=3.12.0"
+protobuf = ">=3.15.0,<5.0.0dev"
 
 [package.extras]
-grpc = ["grpcio (>=1.0.0)"]
+grpc = ["grpcio (>=1.0.0,<2.0.0dev)"]
 
 [[package]]
 name = "graphviz"
-version = "0.19.1"
+version = "0.20.1"
 description = "Simple Python interface for Graphviz"
 category = "main"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.7"
 
 [package.extras]
 dev = ["tox (>=3)", "flake8", "pep8-naming", "wheel", "twine"]
-docs = ["sphinx (>=1.8)", "sphinx-autodoc-typehints", "sphinx-rtd-theme"]
-test = ["pytest (>=6)", "pytest-mock (>=3)", "mock (>=4)", "pytest-cov", "coverage"]
+docs = ["sphinx (>=5)", "sphinx-autodoc-typehints", "sphinx-rtd-theme"]
+test = ["pytest (>=7)", "pytest-mock (>=3)", "mock (>=4)", "pytest-cov", "coverage"]
 
 [[package]]
 name = "greenlet"
-version = "1.1.2"
+version = "1.1.3"
 description = "Lightweight in-process concurrent programming"
 category = "main"
 optional = false
@@ -361,7 +395,7 @@ docs = ["sphinx"]
 
 [[package]]
 name = "gspread"
-version = "5.1.1"
+version = "5.5.0"
 description = "Google Spreadsheets Python API"
 category = "main"
 optional = false
@@ -373,7 +407,7 @@ google-auth-oauthlib = ">=0.4.1"
 
 [[package]]
 name = "gspread-formatting"
-version = "1.0.5"
+version = "1.1.1"
 description = "Complete Google Sheets formatting support for gspread worksheets"
 category = "main"
 optional = false
@@ -392,7 +426,7 @@ python-versions = ">=3.7"
 
 [[package]]
 name = "httplib2"
-version = "0.20.2"
+version = "0.20.4"
 description = "A comprehensive HTTP client library."
 category = "main"
 optional = false
@@ -403,7 +437,7 @@ pyparsing = {version = ">=2.4.2,<3.0.0 || >3.0.0,<3.0.1 || >3.0.1,<3.0.2 || >3.0
 
 [[package]]
 name = "idna"
-version = "3.3"
+version = "3.4"
 description = "Internationalized Domain Names in Applications (IDNA)"
 category = "main"
 optional = false
@@ -411,7 +445,7 @@ python-versions = ">=3.5"
 
 [[package]]
 name = "imagesize"
-version = "1.3.0"
+version = "1.4.1"
 description = "Getting image size from png/jpeg/jpeg2000/gif file"
 category = "main"
 optional = false
@@ -419,9 +453,9 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 
 [[package]]
 name = "importlib-metadata"
-version = "4.10.1"
+version = "4.13.0"
 description = "Read metadata from Python packages"
-category = "dev"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 
@@ -429,9 +463,9 @@ python-versions = ">=3.7"
 zipp = ">=0.5"
 
 [package.extras]
-docs = ["sphinx", "jaraco.packaging (>=8.2)", "rst.linker (>=1.9)"]
+docs = ["sphinx (>=3.5)", "jaraco.packaging (>=9)", "rst.linker (>=1.9)", "furo", "jaraco.tidelift (>=1.4)"]
 perf = ["ipython"]
-testing = ["pytest (>=6)", "pytest-checkdocs (>=2.4)", "pytest-flake8", "pytest-cov", "pytest-enabler (>=1.0.1)", "packaging", "pyfakefs", "flufl.flake8", "pytest-perf (>=0.9.2)", "pytest-black (>=0.3.7)", "pytest-mypy", "importlib-resources (>=1.3)"]
+testing = ["pytest (>=6)", "pytest-checkdocs (>=2.4)", "pytest-flake8", "flake8 (<5)", "pytest-cov", "pytest-enabler (>=1.3)", "packaging", "pyfakefs", "flufl.flake8", "pytest-perf (>=0.9.2)", "pytest-black (>=0.3.7)", "pytest-mypy (>=0.9.1)", "importlib-resources (>=1.3)"]
 
 [[package]]
 name = "isodate"
@@ -446,11 +480,11 @@ six = "*"
 
 [[package]]
 name = "jinja2"
-version = "3.0.3"
+version = "3.1.2"
 description = "A very fast and expressive template engine."
 category = "main"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.7"
 
 [package.dependencies]
 MarkupSafe = ">=2.0"
@@ -518,7 +552,7 @@ six = "*"
 
 [[package]]
 name = "jsonpointer"
-version = "2.2"
+version = "2.3"
 description = "Identify specific nodes in a JSON document (RFC 6901)"
 category = "main"
 optional = false
@@ -526,7 +560,7 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 
 [[package]]
 name = "jsonschema"
-version = "4.3.3"
+version = "4.16.0"
 description = "An implementation of JSON Schema validation for Python"
 category = "main"
 optional = false
@@ -538,11 +572,11 @@ pyrsistent = ">=0.14.0,<0.17.0 || >0.17.0,<0.17.1 || >0.17.1,<0.17.2 || >0.17.2"
 
 [package.extras]
 format = ["fqdn", "idna", "isoduration", "jsonpointer (>1.13)", "rfc3339-validator", "rfc3987", "uri-template", "webcolors (>=1.11)"]
-format_nongpl = ["fqdn", "idna", "isoduration", "jsonpointer (>1.13)", "rfc3339-validator", "rfc3986-validator (>0.1.0)", "uri-template", "webcolors (>=1.11)"]
+format-nongpl = ["fqdn", "idna", "isoduration", "jsonpointer (>1.13)", "rfc3339-validator", "rfc3986-validator (>0.1.0)", "uri-template", "webcolors (>=1.11)"]
 
 [[package]]
 name = "linkml"
-version = "1.3.2"
+version = "1.3.5"
 description = "Linked Open Data Modeling Language"
 category = "main"
 optional = false
@@ -550,20 +584,20 @@ python-versions = ">=3.7.6,<4.0.0"
 
 [package.dependencies]
 antlr4-python3-runtime = ">=4.9.0,<4.10"
-argparse = ">=1.4.0"
 click = ">=7.0"
 graphviz = ">=0.10.1"
 hbreader = "*"
 isodate = ">=0.6.0"
-jinja2 = "*"
+jinja2 = ">=3.1.0"
 jsonasobj2 = ">=1.0.3,<2.0.0"
 jsonschema = ">=3.0.1"
 linkml-dataops = "*"
-linkml-runtime = ">=1.3.0,<2.0.0"
+linkml-runtime = ">=1.3,<1.4"
 myst-parser = "*"
 openpyxl = "*"
 parse = "*"
 prefixcommons = ">=0.1.7"
+prefixmaps = ">=0.1.3,<0.2.0"
 pydantic = "*"
 pyjsg = ">=0.11.6"
 pyshex = ">=0.7.20"
@@ -574,6 +608,7 @@ rdflib = ">=6.0.0"
 requests = ">=2.22"
 sphinx-click = "*"
 sqlalchemy = ">=1.4.31"
+tox = ">=3.25.1,<4.0.0"
 watchdog = ">=0.9.0"
 
 [package.extras]
@@ -616,7 +651,7 @@ requests = "*"
 
 [[package]]
 name = "markdown"
-version = "3.3.6"
+version = "3.3.7"
 description = "Python implementation of Markdown."
 category = "dev"
 optional = false
@@ -630,56 +665,56 @@ testing = ["coverage", "pyyaml"]
 
 [[package]]
 name = "markdown-it-py"
-version = "2.0.0"
+version = "2.1.0"
 description = "Python port of markdown-it. Markdown parsing, done right!"
 category = "main"
 optional = false
-python-versions = "~=3.6"
+python-versions = ">=3.7"
 
 [package.dependencies]
-attrs = ">=19,<22"
 mdurl = ">=0.1,<1.0"
 
 [package.extras]
-testing = ["pytest-regressions", "pytest-cov", "pytest", "coverage"]
-rtd = ["sphinx-book-theme", "sphinx-panels (>=0.4.0,<0.5.0)", "sphinx-copybutton", "sphinx (>=2,<4)", "pyyaml", "myst-nb (==0.13.0a1)"]
-plugins = ["mdit-py-plugins"]
-linkify = ["linkify-it-py (>=1.0,<2.0)"]
-compare = ["panflute (>=1.12,<2.0)", "mistune (>=0.8.4,<0.9.0)", "mistletoe-ebp (>=0.10.0,<0.11.0)", "markdown (>=3.2.2,<3.3.0)", "commonmark (>=0.9.1,<0.10.0)"]
+benchmarking = ["psutil", "pytest", "pytest-benchmark (>=3.2,<4.0)"]
 code_style = ["pre-commit (==2.6)"]
-benchmarking = ["pytest-benchmark (>=3.2,<4.0)", "pytest", "psutil"]
+compare = ["commonmark (>=0.9.1,<0.10.0)", "markdown (>=3.3.6,<3.4.0)", "mistletoe (>=0.8.1,<0.9.0)", "mistune (>=2.0.2,<2.1.0)", "panflute (>=2.1.3,<2.2.0)"]
+linkify = ["linkify-it-py (>=1.0,<2.0)"]
+plugins = ["mdit-py-plugins"]
+profiling = ["gprof2dot"]
+rtd = ["attrs", "myst-parser", "pyyaml", "sphinx", "sphinx-copybutton", "sphinx-design", "sphinx-book-theme"]
+testing = ["coverage", "pytest", "pytest-cov", "pytest-regressions"]
 
 [[package]]
 name = "markupsafe"
-version = "2.0.1"
+version = "2.1.1"
 description = "Safely add untrusted strings to HTML/XML markup."
 category = "main"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.7"
 
 [[package]]
 name = "mdit-py-plugins"
-version = "0.3.0"
+version = "0.3.1"
 description = "Collection of plugins for markdown-it-py"
 category = "main"
 optional = false
-python-versions = "~=3.6"
+python-versions = ">=3.7"
 
 [package.dependencies]
 markdown-it-py = ">=1.0.0,<3.0.0"
 
 [package.extras]
-code_style = ["pre-commit (==2.6)"]
-rtd = ["myst-parser (>=0.14.0,<0.15.0)", "sphinx-book-theme (>=0.1.0,<0.2.0)"]
-testing = ["coverage", "pytest (>=3.6,<4)", "pytest-cov", "pytest-regressions"]
+testing = ["pytest-regressions", "pytest-cov", "pytest", "coverage"]
+rtd = ["sphinx-book-theme (>=0.1.0,<0.2.0)", "myst-parser (>=0.16.1,<0.17.0)", "attrs"]
+code_style = ["pre-commit"]
 
 [[package]]
 name = "mdurl"
-version = "0.1.0"
+version = "0.1.2"
 description = "Markdown URL utilities"
 category = "main"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.7"
 
 [[package]]
 name = "mergedeep"
@@ -691,21 +726,21 @@ python-versions = ">=3.6"
 
 [[package]]
 name = "mkdocs"
-version = "1.2.3"
+version = "1.4.0"
 description = "Project documentation with Markdown."
 category = "dev"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.7"
 
 [package.dependencies]
-click = ">=3.3"
+click = ">=7.0"
 ghp-import = ">=1.0"
-importlib-metadata = ">=3.10"
-Jinja2 = ">=2.10.1"
-Markdown = ">=3.2.1"
+importlib-metadata = {version = ">=4.3", markers = "python_version < \"3.10\""}
+Jinja2 = ">=2.11.1"
+Markdown = ">=3.2.1,<3.4"
 mergedeep = ">=1.3.4"
 packaging = ">=20.5"
-PyYAML = ">=3.10"
+PyYAML = ">=5.1"
 pyyaml-env-tag = ">=0.1"
 watchdog = ">=2.0"
 
@@ -714,18 +749,18 @@ i18n = ["babel (>=2.9.0)"]
 
 [[package]]
 name = "more-click"
-version = "0.0.6"
+version = "0.1.1"
 description = "More click."
 category = "main"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.7"
 
 [package.dependencies]
 click = "*"
 
 [[package]]
 name = "more-itertools"
-version = "8.12.0"
+version = "8.14.0"
 description = "More routines for operating on iterables, beyond itertools"
 category = "dev"
 optional = false
@@ -733,38 +768,39 @@ python-versions = ">=3.5"
 
 [[package]]
 name = "myst-parser"
-version = "0.16.1"
+version = "0.18.1"
 description = "An extended commonmark compliant parser, with bridges to docutils & sphinx."
 category = "main"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.7"
 
 [package.dependencies]
-docutils = ">=0.15,<0.18"
+docutils = ">=0.15,<0.20"
 jinja2 = "*"
 markdown-it-py = ">=1.0.0,<3.0.0"
-mdit-py-plugins = ">=0.3.0,<0.4.0"
+mdit-py-plugins = ">=0.3.1,<0.4.0"
 pyyaml = "*"
-sphinx = ">=3.1,<5"
+sphinx = ">=4,<6"
+typing-extensions = "*"
 
 [package.extras]
 code_style = ["pre-commit (>=2.12,<3.0)"]
 linkify = ["linkify-it-py (>=1.0,<2.0)"]
-rtd = ["ipython", "sphinx-book-theme (>=0.1.0,<0.2.0)", "sphinx-panels (>=0.5.2,<0.6.0)", "sphinxcontrib-bibtex (>=2.1,<3.0)", "sphinxext-rediraffe (>=0.2,<1.0)", "sphinxcontrib.mermaid (>=0.6.3,<0.7.0)", "sphinxext-opengraph (>=0.4.2,<0.5.0)"]
-testing = ["beautifulsoup4", "coverage", "docutils (>=0.17.0,<0.18.0)", "pytest (>=3.6,<4)", "pytest-cov", "pytest-regressions"]
+rtd = ["ipython", "sphinx-book-theme", "sphinx-design", "sphinxext-rediraffe (>=0.2.7,<0.3.0)", "sphinxcontrib.mermaid (>=0.7.1,<0.8.0)", "sphinxext-opengraph (>=0.6.3,<0.7.0)"]
+testing = ["beautifulsoup4", "coverage", "pytest (>=6,<7)", "pytest-cov", "pytest-regressions", "pytest-param-files (>=0.3.4,<0.4.0)", "sphinx-pytest", "sphinx (<5.2)"]
 
 [[package]]
 name = "oauthlib"
-version = "3.1.1"
+version = "3.2.1"
 description = "A generic, spec-compliant, thorough implementation of the OAuth request-signing logic"
 category = "main"
 optional = false
 python-versions = ">=3.6"
 
 [package.extras]
-rsa = ["cryptography (>=3.0.0,<4)"]
+rsa = ["cryptography (>=3.0.0)"]
 signals = ["blinker (>=1.4.0)"]
-signedtoken = ["cryptography (>=3.0.0,<4)", "pyjwt (>=2.0.0,<3)"]
+signedtoken = ["cryptography (>=3.0.0)", "pyjwt (>=2.0.0,<3)"]
 
 [[package]]
 name = "ontodev-cogs"
@@ -786,7 +822,7 @@ termcolor = "*"
 
 [[package]]
 name = "openpyxl"
-version = "3.0.9"
+version = "3.0.10"
 description = "A Python library to read/write Excel 2010 xlsx/xlsm files"
 category = "main"
 optional = false
@@ -814,11 +850,23 @@ category = "main"
 optional = false
 python-versions = "*"
 
+[[package]]
+name = "platformdirs"
+version = "2.5.2"
+description = "A small Python module for determining appropriate platform-specific dirs, e.g. a \"user data dir\"."
+category = "main"
+optional = false
+python-versions = ">=3.7"
+
+[package.extras]
+docs = ["furo (>=2021.7.5b38)", "proselint (>=0.10.2)", "sphinx-autodoc-typehints (>=1.12)", "sphinx (>=4)"]
+test = ["appdirs (==1.4.4)", "pytest-cov (>=2.7)", "pytest-mock (>=3.6)", "pytest (>=6)"]
+
 [[package]]
 name = "pluggy"
 version = "0.13.1"
 description = "plugin and hook calling mechanisms for python"
-category = "dev"
+category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 
@@ -844,19 +892,31 @@ python-versions = ">=3.7,<4.0"
 [package.dependencies]
 requests = ">=2.28.1,<3.0.0"
 
+[[package]]
+name = "prefixmaps"
+version = "0.1.3"
+description = ""
+category = "main"
+optional = false
+python-versions = ">=3.7.6,<4.0.0"
+
+[package.dependencies]
+importlib-metadata = ">=4.12.0,<5.0.0"
+PyYAML = ">=6.0,<7.0"
+
 [[package]]
 name = "protobuf"
-version = "3.19.3"
-description = "Protocol Buffers"
+version = "4.21.7"
+description = ""
 category = "main"
 optional = false
-python-versions = ">=3.5"
+python-versions = ">=3.7"
 
 [[package]]
 name = "py"
 version = "1.11.0"
 description = "library with cross-python path, ini-parsing, io, code, log facilities"
-category = "dev"
+category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
 
@@ -881,14 +941,14 @@ pyasn1 = ">=0.4.6,<0.5.0"
 
 [[package]]
 name = "pydantic"
-version = "1.9.0"
-description = "Data validation and settings management using python 3.6 type hinting"
+version = "1.10.2"
+description = "Data validation and settings management using python type hints"
 category = "main"
 optional = false
-python-versions = ">=3.6.1"
+python-versions = ">=3.7"
 
 [package.dependencies]
-typing-extensions = ">=3.7.4.3"
+typing-extensions = ">=4.1.0"
 
 [package.extras]
 dotenv = ["python-dotenv (>=0.10.4)"]
@@ -896,46 +956,49 @@ email = ["email-validator (>=1.0.3)"]
 
 [[package]]
 name = "pygments"
-version = "2.11.2"
+version = "2.13.0"
 description = "Pygments is a syntax highlighting package written in Python."
 category = "main"
 optional = false
-python-versions = ">=3.5"
+python-versions = ">=3.6"
+
+[package.extras]
+plugins = ["importlib-metadata"]
 
 [[package]]
 name = "pyjsg"
-version = "0.11.9"
+version = "0.11.10"
 description = "Python JSON Schema Grammar interpreter"
 category = "main"
 optional = false
 python-versions = "*"
 
 [package.dependencies]
-antlr4-python3-runtime = ">=4.9,<5.0"
+antlr4-python3-runtime = ">=4.9.3,<4.10.0"
 jsonasobj = ">=1.2.1"
 
 [[package]]
 name = "pyparsing"
-version = "3.0.6"
-description = "Python parsing module"
+version = "3.0.9"
+description = "pyparsing module - Classes and methods to define and execute parsing grammars"
 category = "main"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.6.8"
 
 [package.extras]
-diagrams = ["jinja2", "railroad-diagrams"]
+diagrams = ["railroad-diagrams", "jinja2"]
 
 [[package]]
 name = "pyrsistent"
-version = "0.18.0"
+version = "0.18.1"
 description = "Persistent/Functional/Immutable data structures"
 category = "main"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.7"
 
 [[package]]
 name = "pyshex"
-version = "0.8.0"
+version = "0.8.1"
 description = "Python ShEx Implementation"
 category = "main"
 optional = false
@@ -944,39 +1007,37 @@ python-versions = ">=3.6"
 [package.dependencies]
 cfgraph = ">=0.2.1"
 chardet = "*"
-pyshexc = "0.9.0"
-rdflib = ">=5.0.0"
+pyshexc = "0.9.1"
 rdflib-shim = "*"
 requests = ">=2.22.0"
-shexjsg = ">=0.8.1"
+shexjsg = ">=0.8.2"
 sparqlslurper = ">=0.5.1"
 sparqlwrapper = ">=1.8.5"
 urllib3 = "*"
 
 [[package]]
 name = "pyshexc"
-version = "0.9.0"
+version = "0.9.1"
 description = "PyShExC - Python ShEx compiler"
 category = "main"
 optional = false
 python-versions = ">=3.7"
 
 [package.dependencies]
-antlr4-python3-runtime = ">=4.9,<5.0"
+antlr4-python3-runtime = ">=4.9.3,<4.10.0"
 chardet = "*"
 jsonasobj = ">=1.2.1"
-pyjsg = ">=0.11.9"
-rdflib = ">=5.0.0"
+pyjsg = ">=0.11.10"
 rdflib-shim = "*"
 shexjsg = ">=0.8.1"
 
 [[package]]
 name = "pystow"
-version = "0.2.8"
+version = "0.4.6"
 description = "Easily pick a place to store data for your python package."
 category = "main"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.7"
 
 [package.dependencies]
 click = "*"
@@ -984,11 +1045,12 @@ requests = "*"
 tqdm = "*"
 
 [package.extras]
-xml = ["lxml"]
-rdf = ["rdflib"]
-pandas = ["pandas"]
-docs = ["sphinx-automodapi", "sphinx-autodoc-typehints", "sphinx-click", "sphinx-rtd-theme", "sphinx"]
 aws = ["boto3"]
+docs = ["sphinx", "sphinx-rtd-theme", "sphinx-click", "sphinx-autodoc-typehints", "sphinx-automodapi"]
+pandas = ["pandas"]
+rdf = ["rdflib"]
+tests = ["coverage", "pytest", "requests-file"]
+xml = ["lxml"]
 
 [[package]]
 name = "pytest"
@@ -1039,9 +1101,20 @@ python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,>=2.7"
 [package.dependencies]
 six = ">=1.5"
 
+[[package]]
+name = "pytrie"
+version = "0.4.0"
+description = "A pure Python implementation of the trie data structure."
+category = "main"
+optional = false
+python-versions = "*"
+
+[package.dependencies]
+sortedcontainers = "*"
+
 [[package]]
 name = "pytz"
-version = "2021.3"
+version = "2022.4"
 description = "World timezone definitions, modern and historical"
 category = "main"
 optional = false
@@ -1049,11 +1122,11 @@ python-versions = "*"
 
 [[package]]
 name = "pyyaml"
-version = "5.4.1"
+version = "6.0"
 description = "YAML parser and emitter for Python"
 category = "main"
 optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*"
+python-versions = ">=3.6"
 
 [[package]]
 name = "pyyaml-env-tag"
@@ -1068,7 +1141,7 @@ pyyaml = "*"
 
 [[package]]
 name = "rdflib"
-version = "6.1.1"
+version = "6.2.0"
 description = "RDFLib is a Python library for working with RDF, a simple yet powerful language for representing information."
 category = "main"
 optional = false
@@ -1079,9 +1152,12 @@ isodate = "*"
 pyparsing = "*"
 
 [package.extras]
-docs = ["sphinx (<5)", "sphinxcontrib-apidoc"]
+berkeleydb = ["berkeleydb"]
+dev = ["black (==22.6.0)", "flake8", "isort", "mypy", "pep8-naming", "types-setuptools", "flakeheaven"]
+docs = ["myst-parser", "sphinx (<6)", "sphinxcontrib-apidoc", "sphinxcontrib-kroki", "sphinx-autodoc-typehints"]
 html = ["html5lib"]
-tests = ["berkeleydb", "html5lib", "networkx", "pytest", "pytest-cov", "pytest-subtests"]
+networkx = ["networkx"]
+tests = ["html5lib", "pytest", "pytest-cov"]
 
 [[package]]
 name = "rdflib-jsonld"
@@ -1126,7 +1202,7 @@ use_chardet_on_py3 = ["chardet (>=3.0.2,<6)"]
 
 [[package]]
 name = "requests-oauthlib"
-version = "1.3.0"
+version = "1.3.1"
 description = "OAuthlib authentication support for Requests."
 category = "main"
 optional = false
@@ -1141,7 +1217,7 @@ rsa = ["oauthlib[signedtoken] (>=3.0.0)"]
 
 [[package]]
 name = "rsa"
-version = "4.8"
+version = "4.9"
 description = "Pure-Python RSA implementation"
 category = "main"
 optional = false
@@ -1152,7 +1228,7 @@ pyasn1 = ">=0.1.3"
 
 [[package]]
 name = "ruamel.yaml"
-version = "0.17.20"
+version = "0.17.21"
 description = "ruamel.yaml is a YAML parser/emitter that supports roundtrip preservation of comments, seq/map flow style, and map key order"
 category = "main"
 optional = false
@@ -1175,14 +1251,14 @@ python-versions = ">=3.5"
 
 [[package]]
 name = "shexjsg"
-version = "0.8.1"
+version = "0.8.2"
 description = "ShExJSG - Astract Syntax Tree for the ShEx 2.0 language"
 category = "main"
 optional = false
 python-versions = "*"
 
 [package.dependencies]
-pyjsg = ">=0.11.9"
+pyjsg = ">=0.11.10"
 
 [[package]]
 name = "six"
@@ -1200,9 +1276,17 @@ category = "main"
 optional = false
 python-versions = "*"
 
+[[package]]
+name = "sortedcontainers"
+version = "2.4.0"
+description = "Sorted Containers -- Sorted List, Sorted Dict, Sorted Set"
+category = "main"
+optional = false
+python-versions = "*"
+
 [[package]]
 name = "soupsieve"
-version = "2.3.1"
+version = "2.3.2.post1"
 description = "A modern CSS selector implementation for Beautiful Soup."
 category = "main"
 optional = false
@@ -1223,21 +1307,24 @@ sparqlwrapper = ">=1.8.2"
 
 [[package]]
 name = "sparqlwrapper"
-version = "1.8.5"
+version = "2.0.0"
 description = "SPARQL Endpoint interface to Python"
 category = "main"
 optional = false
-python-versions = "*"
+python-versions = ">=3.7"
 
 [package.dependencies]
-rdflib = ">=4.0"
+rdflib = ">=6.1.1"
 
 [package.extras]
+dev = ["setuptools (>=3.7.1)", "mypy (>=0.931)", "pandas (>=1.3.5)", "pandas-stubs (>=1.2.0.48)"]
+docs = ["sphinx (<5)", "sphinx-rtd-theme"]
 keepalive = ["keepalive (>=0.5)"]
+pandas = ["pandas (>=1.3.5)"]
 
 [[package]]
 name = "sphinx"
-version = "4.3.2"
+version = "5.2.3"
 description = "Python documentation generator"
 category = "main"
 optional = false
@@ -1245,15 +1332,16 @@ python-versions = ">=3.6"
 
 [package.dependencies]
 alabaster = ">=0.7,<0.8"
-babel = ">=1.3"
-colorama = {version = ">=0.3.5", markers = "sys_platform == \"win32\""}
-docutils = ">=0.14,<0.18"
-imagesize = "*"
-Jinja2 = ">=2.3"
-packaging = "*"
-Pygments = ">=2.0"
+babel = ">=2.9"
+colorama = {version = ">=0.4.5", markers = "sys_platform == \"win32\""}
+docutils = ">=0.14,<0.20"
+imagesize = ">=1.3"
+importlib-metadata = {version = ">=4.8", markers = "python_version < \"3.10\""}
+Jinja2 = ">=3.0"
+packaging = ">=21.0"
+Pygments = ">=2.12"
 requests = ">=2.5.0"
-snowballstemmer = ">=1.1"
+snowballstemmer = ">=2.0"
 sphinxcontrib-applehelp = "*"
 sphinxcontrib-devhelp = "*"
 sphinxcontrib-htmlhelp = ">=2.0.0"
@@ -1263,16 +1351,16 @@ sphinxcontrib-serializinghtml = ">=1.1.5"
 
 [package.extras]
 docs = ["sphinxcontrib-websupport"]
-lint = ["flake8 (>=3.5.0)", "isort", "mypy (>=0.920)", "docutils-stubs", "types-typed-ast", "types-pkg-resources", "types-requests"]
-test = ["pytest", "pytest-cov", "html5lib", "cython", "typed-ast"]
+lint = ["flake8 (>=3.5.0)", "flake8-comprehensions", "flake8-bugbear", "flake8-simplify", "isort", "mypy (>=0.981)", "sphinx-lint", "docutils-stubs", "types-typed-ast", "types-requests"]
+test = ["pytest (>=4.6)", "html5lib", "typed-ast", "cython"]
 
 [[package]]
 name = "sphinx-click"
-version = "3.0.2"
+version = "4.3.0"
 description = "Sphinx extension that automatically documents click applications"
 category = "main"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.7"
 
 [package.dependencies]
 click = ">=7.0"
@@ -1352,7 +1440,7 @@ test = ["pytest"]
 
 [[package]]
 name = "sqlalchemy"
-version = "1.4.39"
+version = "1.4.41"
 description = "Database Abstraction Library"
 category = "main"
 optional = false
@@ -1366,7 +1454,7 @@ aiomysql = ["greenlet (!=0.4.17)", "aiomysql"]
 aiosqlite = ["typing_extensions (!=3.10.0.1)", "greenlet (!=0.4.17)", "aiosqlite"]
 asyncio = ["greenlet (!=0.4.17)"]
 asyncmy = ["greenlet (!=0.4.17)", "asyncmy (>=0.2.3,!=0.2.4)"]
-mariadb_connector = ["mariadb (>=1.0.1)"]
+mariadb_connector = ["mariadb (>=1.0.1,!=1.1.2)"]
 mssql = ["pyodbc"]
 mssql_pymssql = ["pymssql"]
 mssql_pyodbc = ["pyodbc"]
@@ -1384,22 +1472,25 @@ sqlcipher = ["sqlcipher3-binary"]
 
 [[package]]
 name = "tabulate"
-version = "0.8.9"
+version = "0.8.10"
 description = "Pretty-print tabular data"
 category = "main"
 optional = false
-python-versions = "*"
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
 
 [package.extras]
 widechars = ["wcwidth"]
 
 [[package]]
 name = "termcolor"
-version = "1.1.0"
-description = "ANSII Color formatting for output in terminal."
+version = "2.0.1"
+description = "ANSI color formatting for output in terminal"
 category = "main"
 optional = false
-python-versions = "*"
+python-versions = ">=3.7"
+
+[package.extras]
+tests = ["pytest-cov", "pytest"]
 
 [[package]]
 name = "toml"
@@ -1409,9 +1500,39 @@ category = "dev"
 optional = false
 python-versions = ">=2.6, !=3.0.*, !=3.1.*, !=3.2.*"
 
+[[package]]
+name = "tomli"
+version = "2.0.1"
+description = "A lil' TOML parser"
+category = "main"
+optional = false
+python-versions = ">=3.7"
+
+[[package]]
+name = "tox"
+version = "3.26.0"
+description = "tox is a generic virtualenv management and test command line tool"
+category = "main"
+optional = false
+python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,>=2.7"
+
+[package.dependencies]
+colorama = {version = ">=0.4.1", markers = "platform_system == \"Windows\""}
+filelock = ">=3.0.0"
+packaging = ">=14"
+pluggy = ">=0.12.0"
+py = ">=1.4.17"
+six = ">=1.14.0"
+tomli = {version = ">=2.0.1", markers = "python_version >= \"3.7\" and python_version < \"3.11\""}
+virtualenv = ">=16.0.0,<20.0.0 || >20.0.0,<20.0.1 || >20.0.1,<20.0.2 || >20.0.2,<20.0.3 || >20.0.3,<20.0.4 || >20.0.4,<20.0.5 || >20.0.5,<20.0.6 || >20.0.6,<20.0.7 || >20.0.7"
+
+[package.extras]
+docs = ["pygments-github-lexers (>=0.0.5)", "sphinx (>=2.0.0)", "sphinxcontrib-autoprogram (>=0.1.5)", "towncrier (>=18.5.0)"]
+testing = ["flaky (>=3.4.0)", "freezegun (>=0.3.11)", "pytest (>=4.0.0)", "pytest-cov (>=2.5.1)", "pytest-mock (>=1.10.0)", "pytest-randomly (>=1.0.0)", "psutil (>=5.6.1)", "pathlib2 (>=2.3.3)"]
+
 [[package]]
 name = "tqdm"
-version = "4.62.3"
+version = "4.64.1"
 description = "Fast, Extensible Progress Meter"
 category = "main"
 optional = false
@@ -1423,15 +1544,16 @@ colorama = {version = "*", markers = "platform_system == \"Windows\""}
 [package.extras]
 dev = ["py-make (>=0.1.0)", "twine", "wheel"]
 notebook = ["ipywidgets (>=6)"]
+slack = ["slack-sdk"]
 telegram = ["requests"]
 
 [[package]]
 name = "typing-extensions"
-version = "4.0.1"
-description = "Backported and Experimental Type Hints for Python 3.6+"
+version = "4.3.0"
+description = "Backported and Experimental Type Hints for Python 3.7+"
 category = "main"
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.7"
 
 [[package]]
 name = "uritemplate"
@@ -1443,20 +1565,37 @@ python-versions = ">=3.6"
 
 [[package]]
 name = "urllib3"
-version = "1.26.8"
+version = "1.26.12"
 description = "HTTP library with thread-safe connection pooling, file post, and more."
 category = "main"
 optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, <4"
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*, <4"
 
 [package.extras]
-brotli = ["brotlipy (>=0.6.0)"]
-secure = ["pyOpenSSL (>=0.14)", "cryptography (>=1.3.4)", "idna (>=2.0.0)", "certifi", "ipaddress"]
+brotli = ["brotlicffi (>=0.8.0)", "brotli (>=1.0.9)", "brotlipy (>=0.6.0)"]
+secure = ["pyOpenSSL (>=0.14)", "cryptography (>=1.3.4)", "idna (>=2.0.0)", "certifi", "urllib3-secure-extra", "ipaddress"]
 socks = ["PySocks (>=1.5.6,!=1.5.7,<2.0)"]
 
+[[package]]
+name = "virtualenv"
+version = "20.16.5"
+description = "Virtual Python Environment builder"
+category = "main"
+optional = false
+python-versions = ">=3.6"
+
+[package.dependencies]
+distlib = ">=0.3.5,<1"
+filelock = ">=3.4.1,<4"
+platformdirs = ">=2.4,<3"
+
+[package.extras]
+docs = ["proselint (>=0.13)", "sphinx (>=5.1.1)", "sphinx-argparse (>=0.3.1)", "sphinx-rtd-theme (>=1)", "towncrier (>=21.9)"]
+testing = ["coverage (>=6.2)", "coverage-enable-subprocess (>=1)", "flaky (>=3.7)", "packaging (>=21.3)", "pytest (>=7.0.1)", "pytest-env (>=0.6.2)", "pytest-freezegun (>=0.4.2)", "pytest-mock (>=3.6.1)", "pytest-randomly (>=3.10.3)", "pytest-timeout (>=2.1)"]
+
 [[package]]
 name = "watchdog"
-version = "2.1.6"
+version = "2.1.9"
 description = "Filesystem events monitoring"
 category = "main"
 optional = false
@@ -1475,7 +1614,7 @@ python-versions = "*"
 
 [[package]]
 name = "wrapt"
-version = "1.13.3"
+version = "1.14.1"
 description = "Module for decorators, wrappers and monkey patching."
 category = "main"
 optional = false
@@ -1483,139 +1622,598 @@ python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,>=2.7"
 
 [[package]]
 name = "zipp"
-version = "3.7.0"
+version = "3.8.1"
 description = "Backport of pathlib-compatible object wrapper for zip files"
-category = "dev"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 
 [package.extras]
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-testing = ["pytest (>=6)", "pytest-checkdocs (>=2.4)", "pytest-flake8", "pytest-cov", "pytest-enabler (>=1.0.1)", "jaraco.itertools", "func-timeout", "pytest-black (>=0.3.7)", "pytest-mypy"]
+docs = ["sphinx", "jaraco.packaging (>=9)", "rst.linker (>=1.9)", "jaraco.tidelift (>=1.4)"]
+testing = ["pytest (>=6)", "pytest-checkdocs (>=2.4)", "pytest-flake8", "pytest-cov", "pytest-enabler (>=1.3)", "jaraco.itertools", "func-timeout", "pytest-black (>=0.3.7)", "pytest-mypy (>=0.9.1)"]
 
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 python-versions = "^3.9"
-content-hash = "285dc735643ee2239a6c774016aa36061f102230ef151636a3b49c8d73a702c5"
+content-hash = "022b8f34321b81f73488750c59bd6f5adeb7b55630919adabe56930c8bb0bbc9"
 
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+    {file = "wrapt-1.14.1.tar.gz", hash = "sha256:380a85cf89e0e69b7cfbe2ea9f765f004ff419f34194018a6827ac0e3edfed4d"},
+]
 zipp = []
diff --git a/pyproject.toml b/pyproject.toml
index 61e7771..eab4bcc 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -12,10 +12,10 @@ documentation = "https://github.com/linkml/schemasheets"
 
 [tool.poetry.dependencies]
 python = "^3.9"
-linkml = "^1.3.2"
+linkml = "~1.3"
 Jinja2 = "^3.0.3"
 ontodev-cogs = "^0.3.3"
-bioregistry = "^0.4.30"
+bioregistry = "~0.5"
 
 [tool.poetry.dev-dependencies]
 pytest = "^5.2"