From d49eb15c85eeb98971ca6e1afe8c739fdf1dabe2 Mon Sep 17 00:00:00 2001
From: "renovate[bot]" <29139614+renovate[bot]@users.noreply.github.com>
Date: Thu, 19 Dec 2024 22:19:21 +0000
Subject: [PATCH] chore(deps): update submissions

---
 Dockerfile.dataset_submissions                 |  2 +-
 Dockerfile.upload_failures                     |  2 +-
 Dockerfile.upload_success                      |  2 +-
 .../processing/requirements.txt                | 18 +++++++++---------
 .../upload_handler/requirements.txt            |  2 +-
 5 files changed, 13 insertions(+), 13 deletions(-)

diff --git a/Dockerfile.dataset_submissions b/Dockerfile.dataset_submissions
index 75bc557f31681..603ed54faafe7 100644
--- a/Dockerfile.dataset_submissions
+++ b/Dockerfile.dataset_submissions
@@ -1,4 +1,4 @@
-FROM public.ecr.aws/lambda/python:3.9
+FROM public.ecr.aws/lambda/python:3.13
 
 # Update AWS root Certificates
 ADD https://truststore.pki.rds.amazonaws.com/global/global-bundle.pem /etc/ssl/certs/rds-global-bundle.pem
diff --git a/Dockerfile.upload_failures b/Dockerfile.upload_failures
index 7c8c70496df7a..9f4c54f2e8bff 100644
--- a/Dockerfile.upload_failures
+++ b/Dockerfile.upload_failures
@@ -1,4 +1,4 @@
-FROM public.ecr.aws/lambda/python:3.8
+FROM public.ecr.aws/lambda/python:3.13
 
 # Update AWS root Certificates
 ADD https://truststore.pki.rds.amazonaws.com/global/global-bundle.pem /etc/ssl/certs/rds-global-bundle.pem
diff --git a/Dockerfile.upload_success b/Dockerfile.upload_success
index a0da68b1991d8..ea6472856595f 100644
--- a/Dockerfile.upload_success
+++ b/Dockerfile.upload_success
@@ -1,4 +1,4 @@
-FROM public.ecr.aws/lambda/python:3.8
+FROM public.ecr.aws/lambda/python:3.13
 
 # Update AWS root Certificates
 ADD https://truststore.pki.rds.amazonaws.com/global/global-bundle.pem /etc/ssl/certs/rds-global-bundle.pem
diff --git a/python_dependencies/processing/requirements.txt b/python_dependencies/processing/requirements.txt
index 3001fe45b9843..9b96cba160d10 100644
--- a/python_dependencies/processing/requirements.txt
+++ b/python_dependencies/processing/requirements.txt
@@ -1,24 +1,24 @@
-anndata==0.10.8
+anndata==0.11.1
 awscli
 boto3>=1.11.17
 botocore>=1.14.17
 cellxgene-schema
 dataclasses-json
-ddtrace==2.1.4
-numba==0.59.1
-numpy<2
+ddtrace==2.18.0
+numba==0.60.0
+numpy<3
 pandas>2,<3
 psutil>=5.9.0
 psycopg2-binary==2.*
 pyarrow>=1.0
 pydantic>=1.9.0
 python-json-logger
-pyvips==2.2.2
+pyvips==2.2.3
 requests>=2.22.0
-rpy2==3.5.16
+rpy2==3.5.17
 rsa>=4.7 # not directly required, pinned by Snyk to avoid a vulnerability
-s3fs==0.4.2
-scanpy==1.9.8
+s3fs==2024.12.0
+scanpy==1.10.4
 SQLAlchemy==2.*
 tenacity
-tiledb==0.25.0  # Portal's tiledb version should always be the same or older than Explorer's
+tiledb==0.33.0  # Portal's tiledb version should always be the same or older than Explorer's
diff --git a/python_dependencies/upload_handler/requirements.txt b/python_dependencies/upload_handler/requirements.txt
index c7284f10949c9..f63521b04b4c7 100644
--- a/python_dependencies/upload_handler/requirements.txt
+++ b/python_dependencies/upload_handler/requirements.txt
@@ -2,7 +2,7 @@ boto3
 dataclasses-json
 psycopg2-binary==2.*
 pyrsistent
-python-json-logger==2.0.7
+python-json-logger==3.2.1
 requests>=2.22.0
 rsa>=4.7 # not directly required, pinned by Snyk to avoid a vulnerability
 SQLAlchemy==2.*