Switch to stable build of linkml-owl

requirements-freeze.txt

@@ -1,110 +1,103 @@
-annotated-types==0.6.0
+annotated-types==0.7.0
 antlr4-python3-runtime==4.9.3
-argcomplete==3.1.6
+argcomplete==3.3.0
 arrow==1.3.0
-attrs==23.1.0
-bcp47==0.0.4
-CacheControl==0.13.1
-cachetools==5.3.2
-certifi==2023.11.17
+attrs==23.2.0
+bcp47==0.1.0
+CacheControl==0.14.0
+certifi==2024.6.2
 CFGraph==0.2.1
 chardet==5.2.0
 charset-normalizer==3.3.2
 check-jsonschema==0.28.4
 click==8.1.7
-colorama==0.4.6
 coloredlogs==15.0.1
-curies==0.7.4
-cwl-upgrader==1.2.10
-cwl-utils==0.31
-cwltool==3.1.20231114134824
+curies==0.7.9
+cwl-upgrader==1.2.11
+cwl-utils==0.33
+cwltool==3.1.20240508115724
 Deprecated==1.2.14
-distlib==0.3.7
 et-xmlfile==1.1.0
-exceptiongroup==1.2.0
-filelock==3.13.1
+exceptiongroup==1.2.1
+filelock==3.14.0
 fqdn==1.5.1
 funowl==0.2.3
-graphviz==0.20.1
-greenlet==3.0.1
+graphviz==0.20.3
+greenlet==3.0.3
 hbreader==0.9.1
 humanfriendly==10.0
-idna==3.6
-importlib-resources==6.1.1
+idna==3.7
 iniconfig==2.0.0
 isodate==0.6.1
 isoduration==20.11.0
-Jinja2==3.1.2
+Jinja2==3.1.4
 json-flattener==0.1.9
 jsonasobj==1.3.1
 jsonasobj2==1.0.4
 jsonpatch==1.33
-jsonpath-ng==1.6.0
+jsonpath-ng==1.6.1
 jsonpointer==2.4
-jsonschema==4.20.0
-jsonschema-specifications==2023.11.1
+jsonschema==4.22.0
+jsonschema-specifications==2023.12.1
 linkml==1.7.10
 linkml-dataops==0.1.0
-linkml-runtime==1.7.5
-linkml_owl @ git+https://github.com/linkml/linkml-owl@2a9d6943035d28af69d91dcd8778a2da9274c03f
-lxml==4.9.3
-MarkupSafe==2.1.3
-mistune==2.0.5
-msgpack==1.0.7
+linkml-runtime==1.7.6
+linkml_owl==0.4.2
+lxml==5.2.2
+MarkupSafe==2.1.5
+mistune==3.0.2
+msgpack==1.0.8
 mypy-extensions==1.0.0
-networkx==3.2.1
-nodeenv==1.9.0
-openpyxl==3.1.2
-packaging==23.2
-parse==1.20.0
-platformdirs==4.0.0
-pluggy==1.3.0
+networkx==3.3
+nodeenv==1.9.1
+openpyxl==3.1.3
+packaging==24.0
+parse==1.20.1
+pluggy==1.5.0
 ply==3.11
 prefixcommons==0.1.12
 prefixmaps==0.2.4
 prov==1.5.1
-psutil==5.9.6
-pydantic==2.5.2
-pydantic_core==2.14.5
-pydot==1.4.2
+psutil==5.9.8
+pydantic==2.7.3
+pydantic_core==2.18.4
+pydot==2.0.0
 PyJSG==0.11.10
-pyparsing==3.1.1
-pyproject-api==1.6.1
+pyparsing==3.1.2
 PyShEx==0.8.1
 PyShExC==0.9.1
-pytest==7.4.3
+pytest==8.2.2
 pytest-logging==2015.11.4
-python-dateutil==2.8.2
+python-dateutil==2.9.0.post0
 PyTrie==0.4.0
 PyYAML==6.0.1
 rdflib==7.0.0
 rdflib-jsonld==0.6.1
 rdflib-shim==1.0.3
-referencing==0.31.0
-regress==0.4.2
-requests==2.31.0
+referencing==0.35.1
+regress==0.4.5
+requests==2.32.3
 rfc3339-validator==0.1.4
 rfc3987==1.3.8
-rpds-py==0.13.1
+rpds-py==0.18.1
 ruamel.yaml==0.18.6
 ruamel.yaml.clib==0.2.8
-schema-salad==8.4.20231117150958
+schema-salad==8.5.20240503091721
 semsql==0.3.3
 shellescape==3.8.1
 ShExJSG==0.8.2
 six==1.16.0
 sortedcontainers==2.4.0
 sparqlslurper==0.5.1
 SPARQLWrapper==2.0.0
-SQLAlchemy==2.0.23
+spython==0.3.13
+SQLAlchemy==2.0.30
 SQLAlchemy-Utils==0.38.3
 tomli==2.0.1
-tox==4.11.4
-types-python-dateutil==2.8.19.14
-typing_extensions==4.8.0
+types-python-dateutil==2.9.0.20240316
+typing_extensions==4.12.1
 uri-template==1.3.0
-urllib3==2.1.0
-virtualenv==20.24.7
-watchdog==3.0.0
-webcolors==1.13
+urllib3==2.2.1
+watchdog==4.0.1
+webcolors==24.6.0
 wrapt==1.16.0

requirements.txt

@@ -1,6 +1,6 @@
 nodeenv
 check-jsonschema
 # cwltool # Causes problems when installed all at once, so this is installed in the setup-environment.sh script
-linkml-owl @ git+https://github.com/linkml/linkml-owl
+linkml-owl
 linkml # use version required by linkml-owl above
 semsql