chore(deps): update backend

chanzuckerberg · Jun 5, 2024 · 5404ed1 · 5404ed1
1 parent b0dbbf0
commit 5404ed1
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Showing 8 changed files with 27 additions and 27 deletions.
diff --git a/Dockerfile.backend b/Dockerfile.backend
@@ -1,4 +1,4 @@
-FROM ubuntu:22.04
+FROM ubuntu:24.04
 
 ENV APP_NAME=corpora-api
 ENV EXPORT_ENV_VARS_TO_LAMBDA="APP_NAME DEPLOYMENT_STAGE"

diff --git a/Dockerfile.backend_de b/Dockerfile.backend_de
@@ -1,4 +1,4 @@
-FROM ubuntu:22.04
+FROM ubuntu:24.04
 
 ENV APP_NAME=corpora-api-de
 ENV EXPORT_ENV_VARS_TO_LAMBDA="APP_NAME DEPLOYMENT_STAGE"

diff --git a/Dockerfile.backend_wmg b/Dockerfile.backend_wmg
@@ -1,4 +1,4 @@
-FROM ubuntu:22.04
+FROM ubuntu:24.04
 
 ENV APP_NAME=corpora-api-wmg
 ENV EXPORT_ENV_VARS_TO_LAMBDA="APP_NAME DEPLOYMENT_STAGE"

diff --git a/backend/api_server/index.html b/backend/api_server/index.html
@@ -9,8 +9,8 @@
     />
     <link
       rel="stylesheet"
-      href="https://cdnjs.cloudflare.com/ajax/libs/swagger-ui/3.0.13/swagger-ui.css"
-      integrity="sha256-Z7Z2kffooC4H3U4Myviypq5dO2IIGkmu7VRtd1YqNn8="
+      href="https://cdnjs.cloudflare.com/ajax/libs/swagger-ui/5.17.14/swagger-ui.css"
+      integrity="sha512-MvYROlKG3cDBPskMQgPmkNgZh85LIf68y7SZ34TIppaIHQz1M/3S/yYqzIfufdKDJjzB9Qu1BV63SZjimJkPvw=="
       crossorigin="anonymous"
     />
     <style>
@@ -84,13 +84,13 @@
     <div id="swagger-ui"></div>
 
     <script
-      src="https://cdnjs.cloudflare.com/ajax/libs/swagger-ui/3.23.11/swagger-ui-bundle.js"
-      integrity="sha256-wmWvmMbIQjnhA5qXYJAw60JjO3/zvM2T/BMnbdBD26w="
+      src="https://cdnjs.cloudflare.com/ajax/libs/swagger-ui/5.17.14/swagger-ui-bundle.js"
+      integrity="sha512-mVvFSCxt0sK0FeL8C7n8BcHh10quzdwfxQbjRaw9pRdKNNep3YQusJS5e2/q4GYt4Ma5yWXSJraoQzXPgZd2EQ=="
       crossorigin="anonymous"
     ></script>
     <script
-      src="https://cdnjs.cloudflare.com/ajax/libs/swagger-ui/3.23.11/swagger-ui-standalone-preset.js"
-      integrity="sha256-AGfcF/HKnhqGTZNL+pNGJ+yemAzr2tuvbP69pYbn+GU="
+      src="https://cdnjs.cloudflare.com/ajax/libs/swagger-ui/5.17.14/swagger-ui-standalone-preset.js"
+      integrity="sha512-DgicCd4AI/d7/OdgaHqES3hA+xJ289Kb5NmMEegbN8w/Dxn5mvvqr9szOR6TQC+wjTTMeqPscKE4vj6bmAQn6g=="
       crossorigin="anonymous"
     ></script>
     <script>

diff --git a/python_dependencies/backend/common/server/requirements.txt b/python_dependencies/backend/common/server/requirements.txt
@@ -1,7 +1,7 @@
-connexion[swagger-ui]~=2.14.2
+connexion[swagger-ui]~=3.1.0
 gunicorn[gevent]~=22.0.0
 furl~=2.1.2
-Flask-Cors~=3.0.6
+Flask-Cors~=4.0.1
 flask-server-timing~=0.1.2
 ddtrace~=2.8.5
 python-json-logger

diff --git a/python_dependencies/backend/de/requirements.txt b/python_dependencies/backend/de/requirements.txt
@@ -1,8 +1,8 @@
 pandas~=2.2.2
 scipy~=1.13.1
-pydantic~=1.10.7
+pydantic~=2.7.3
 numba~=0.59.1
 cellxgene_ontology_guide~=1.0.0
 tiledb
 psutil~=5.9.8
-pyarrow==16.0.0
+pyarrow==16.1.0
diff --git a/python_dependencies/backend/requirements.txt b/python_dependencies/backend/requirements.txt
@@ -1,30 +1,30 @@
 alembic==1.*
-anndata==0.8.0
-Authlib==0.14.3
+anndata==0.10.7
+Authlib==1.3.1
 boto3>=1.11.17
 botocore>=1.14.17
-connexion[swagger-ui]==2.14.2
+connexion[swagger-ui]==3.1.0
 dataclasses-json==0.6.6
-cellxgene-ontology-guide==0.8.0
+cellxgene-ontology-guide==1.0.0
 # TODO: Check if this is really essential for APM tracing
 # see ticket: https://github.com/chanzuckerberg/single-cell-data-portal/issues/5821
 datadog==0.49.1
 ddtrace>=2.1.4, <3
-Flask>=2.2.3, <3
+Flask>=3.0.3, <4
 Flask-Cors>=3.0.6
 flask-server-timing>=0.1.2
 furl>=2.1.2, <3
 gunicorn[gevent]==22.0.0
-jsonschema>=3.2.0, <4
-matplotlib>=3.6.3, <3.7 # 3.7.0 isn't compatible with scanpy: https://github.com/scverse/scanpy/issues/2411
+jsonschema>=4.22, <5
+matplotlib>=3.9, <3.10 # 3.7.0 isn't compatible with scanpy: https://github.com/scverse/scanpy/issues/2411
 moto>=5.0.0
 numba==0.59.1 # required for where's my gene
-numpy==1.23.5  # required for where's my gene
-pandas==1.5.3 # required for where's my gene
+numpy==1.26.4  # required for where's my gene
+pandas==2.2.2 # required for where's my gene
 psutil>=5.9.5, <6
 psycopg2-binary==2.*
-pyarrow==16.0.0 # required for where's my gene
-pydantic>=1.10.7, <2
+pyarrow==16.1.0 # required for where's my gene
+pydantic>=2.7.3, <3
 python-jose[cryptography]>=3.1.0
 python-json-logger
 requests>=2.22.0
@@ -35,4 +35,4 @@ SQLAlchemy-Utils
 SQLAlchemy==2.*
 tenacity
 tiledb
-Werkzeug==2.2.3
+Werkzeug==3.0.3
diff --git a/python_dependencies/backend/wmg/requirements.txt b/python_dependencies/backend/wmg/requirements.txt
@@ -1,7 +1,7 @@
 pandas~=2.2.2
-pydantic~=1.10.7
+pydantic~=2.7.3
 numba~=0.59.1
 cellxgene_ontology_guide~=1.0.0
 tiledb
 psutil~=5.9.8
-pyarrow==16.0.0
+pyarrow==16.1.0