Merge pull request #437 from AllenCellModeling/admin/requirements-upd…

…ate_2024-10-08_20-42

admin/requirements-update_2024-10-08_20-42

requirements/linux/all-requirements.txt

@@ -2,23 +2,23 @@
 # Please do not edit it manually.
 
 aicscytoparam==0.1.12
-aicsimageio==4.14.0
+aicsimageio==4.11.0
 aicspylibczi==3.2.0
 aicsshparam==0.1.7
 aiobotocore==2.4.2
 aiohappyeyeballs==2.4.3
-aiohttp==3.10.8
+aiohttp==3.10.9
 aioitertools==0.12.0
 aiosignal==1.3.1
 alembic==1.13.3
 aniso8601==9.0.1
 anndata==0.10.9
 annotated-types==0.7.0
 antlr4-python3-runtime==4.9.3
-array-api-compat==1.8
+array-api-compat==1.9
 asciitree==0.3.3
 astropy==6.0.1
-astropy-iers-data==0.2024.9.30.0.32.59
+astropy-iers-data==0.2024.10.7.0.32.46
 async-timeout==4.0.3; python_version < "3.11"
 attrs==24.2.0
 autograd==1.7.0
@@ -47,7 +47,7 @@ cycler==0.12.1
 dask==2024.8.0
 dask[array,distributed]==2024.8.0
 dask[array]==2024.8.0
-databricks-sdk==0.33.0
+databricks-sdk==0.34.0
 deprecated==1.2.14
 distributed==2024.8.0
 docker==7.1.0
@@ -57,7 +57,7 @@ einops==0.8.0
 elementpath==4.5.0
 escnn==1.0.11
 exceptiongroup==1.2.2; python_version < "3.11"
-fasteners==0.19
+fasteners==0.19; sys_platform != "emscripten"
 filelock==3.16.1
 fire==0.7.0
 flask==3.0.3
@@ -78,7 +78,7 @@ greenlet==3.1.1; (platform_machine == "win32" or platform_machine == "WIN32" or
 gunicorn==23.0.0; platform_system != "Windows"
 h5py==3.12.1
 huggingface-hub==0.17.3
-humanize==4.10.0
+humanize==4.11.0
 hydra-colorlog==1.2.0
 hydra-core==1.3.2
 hydra-optuna-sweeper==1.2.0
@@ -88,8 +88,8 @@ imageio==2.27.0
 imageio-ffmpeg==0.5.1
 imageio[ffmpeg]==2.27.0
 importlib-metadata==8.4.0
-importlib-resources==6.4.5; python_version < "3.10" or sys_platform != "emscripten"
-itkwasm==1.0b178
+importlib-resources==6.4.5; python_version < "3.12" or sys_platform != "emscripten"
+itkwasm==1.0b179
 itkwasm-downsample==1.4.2
 itkwasm-downsample-emscripten==1.4.2; sys_platform == "emscripten"
 itkwasm-downsample-wasi==1.4.2; sys_platform != "emscripten"
@@ -108,7 +108,7 @@ lxml==4.9.4
 mako==1.3.5
 markdown==3.7
 markdown-it-py==3.0.0
-markupsafe==2.1.5
+markupsafe==3.0.1
 matplotlib==3.9.2
 mdurl==0.1.2
 mlflow==2.16.2
@@ -120,7 +120,7 @@ multidict==6.1.0
 natsort==8.4.0
 networkx==3.2.1
 ngff-zarr==0.8.7
-nibabel==5.2.1
+nibabel==5.3.0
 ninja==1.11.1.1
 numcodecs==0.12.1
 numpy==1.26.4
@@ -156,6 +156,7 @@ point-cloud-utils==0.31.0
 pooch==1.8.2
 positional-encodings==6.0.3
 prettytable==3.11.0
+propcache==0.2.0
 protobuf==5.28.2
 psutil==6.0.0
 py3nj==0.1.2
@@ -178,11 +179,11 @@ python-dateutil==2.9.0.post0
 python-dotenv==1.0.1
 pytorch-lightning==2.3.3
 pytz==2024.2
-pywin32==306; sys_platform == "win32"
+pywin32==307; sys_platform == "win32"
 pyyaml==6.0.2
 requests==2.32.3
 resource-backed-dask-array==0.1.0
-rich==13.9.1
+rich==13.9.2
 rich-argparse==1.5.2
 rsa==4.9
 s3fs==2023.3.0
@@ -203,14 +204,14 @@ sqlparse==0.5.1
 stevedore==5.3.0
 sympy==1.13.3
 tblib==3.0.0
-termcolor==2.4.0
+termcolor==2.5.0
 threadpoolctl==3.5.0
-tifffile==2023.2.28
+tifffile==2024.8.30
 timm==1.0.9
-toolz==0.12.1
+toolz==1.0.0
 torch==2.0.1
 torch-geometric==2.6.1
-torchio==0.20.0
+torchio==0.20.1
 torchmetrics==1.4.2
 torchserve==0.12.0
 torchvision==0.15.2
@@ -229,10 +230,10 @@ wcwidth==0.2.13
 werkzeug==3.0.4
 wheel==0.44.0
 wrapt==1.16.0
-xarray==2024.7.0
+xarray==2023.1.0
 xmlschema==3.4.2
 xsdata==24.3.1
-yarl==1.13.1
-zarr==2.15.0
+yarl==1.14.0
+zarr==2.17.2
 zict==3.0.0
 zipp==3.20.2

requirements/linux/docs-requirements.txt

@@ -4,7 +4,7 @@
 aicspylibczi==3.2.0
 aiobotocore==2.4.2
 aiohappyeyeballs==2.4.3
-aiohttp==3.10.8
+aiohttp==3.10.9
 aioitertools==0.12.0
 aiosignal==1.3.1
 alabaster==0.7.16
@@ -13,10 +13,10 @@ aniso8601==9.0.1
 anndata==0.10.9
 annotated-types==0.7.0
 antlr4-python3-runtime==4.9.3
-array-api-compat==1.8
+array-api-compat==1.9
 asciitree==0.3.3
 astropy==6.0.1
-astropy-iers-data==0.2024.9.30.0.32.59
+astropy-iers-data==0.2024.10.7.0.32.46
 async-timeout==4.0.3; python_version < "3.11"
 attrs==24.2.0
 autopage==0.5.2
@@ -46,7 +46,7 @@ cycler==0.12.1
 dask==2024.8.0
 dask[array,distributed]==2024.8.0
 dask[array]==2024.8.0
-databricks-sdk==0.33.0
+databricks-sdk==0.34.0
 deprecated==1.2.14
 distributed==2024.8.0
 docker==7.1.0
@@ -55,7 +55,7 @@ edt==2.4.1
 einops==0.8.0
 elementpath==4.5.0
 exceptiongroup==1.2.2; python_version < "3.11"
-fasteners==0.19
+fasteners==0.19; sys_platform != "emscripten"
 filelock==3.16.1
 fire==0.7.0
 flask==3.0.3
@@ -85,8 +85,8 @@ imageio-ffmpeg==0.5.1
 imageio[ffmpeg]==2.27.0
 imagesize==1.4.1
 importlib-metadata==8.4.0
-importlib-resources==6.4.5; python_version < "3.10" or sys_platform != "emscripten"
-itkwasm==1.0b178
+importlib-resources==6.4.5; python_version < "3.12" or sys_platform != "emscripten"
+itkwasm==1.0b179
 itkwasm-downsample==1.4.2
 itkwasm-downsample-emscripten==1.4.2; sys_platform == "emscripten"
 itkwasm-downsample-wasi==1.4.2; sys_platform != "emscripten"
@@ -105,7 +105,7 @@ m2r2==0.3.3.post2
 mako==1.3.5
 markdown==3.7
 markdown-it-py==3.0.0
-markupsafe==2.1.5
+markupsafe==3.0.1
 matplotlib==3.9.2
 mdurl==0.1.2
 mistune==0.8.4
@@ -148,6 +148,7 @@ pillow==10.4.0
 platformdirs==4.3.6
 positional-encodings==6.0.3
 prettytable==3.11.0
+propcache==0.2.0
 protobuf==5.28.2
 psutil==6.0.0
 pyarrow==17.0.0
@@ -166,10 +167,10 @@ python-dateutil==2.9.0.post0
 python-dotenv==1.0.1
 pytorch-lightning==2.3.3
 pytz==2024.2
-pywin32==306; sys_platform == "win32"
+pywin32==307; sys_platform == "win32"
 pyyaml==6.0.2
 requests==2.32.3
-rich==13.9.1
+rich==13.9.2
 rich-argparse==1.5.2
 rsa==4.9
 s3fs==2023.3.0
@@ -198,11 +199,11 @@ sqlparse==0.5.1
 stevedore==5.3.0
 sympy==1.13.3
 tblib==3.0.0
-termcolor==2.4.0
+termcolor==2.5.0
 threadpoolctl==3.5.0
-tifffile==2023.2.28
+tifffile==2024.8.30
 timm==1.0.9
-toolz==0.12.1
+toolz==1.0.0
 torch==2.0.1
 torchmetrics==1.4.2
 torchvision==0.15.2
@@ -219,10 +220,10 @@ wcwidth==0.2.13
 werkzeug==3.0.4
 wheel==0.44.0
 wrapt==1.16.0
-xarray==2024.7.0
+xarray==2023.1.0
 xmlschema==3.4.2
 xsdata==24.3.1
-yarl==1.13.1
-zarr==2.15.0
+yarl==1.14.0
+zarr==2.17.2
 zict==3.0.0
 zipp==3.20.2

requirements/linux/equiv-requirements.txt

@@ -4,18 +4,18 @@
 aicspylibczi==3.2.0
 aiobotocore==2.4.2
 aiohappyeyeballs==2.4.3
-aiohttp==3.10.8
+aiohttp==3.10.9
 aioitertools==0.12.0
 aiosignal==1.3.1
 alembic==1.13.3
 aniso8601==9.0.1
 anndata==0.10.9
 annotated-types==0.7.0
 antlr4-python3-runtime==4.9.3
-array-api-compat==1.8
+array-api-compat==1.9
 asciitree==0.3.3
 astropy==6.0.1
-astropy-iers-data==0.2024.9.30.0.32.59
+astropy-iers-data==0.2024.10.7.0.32.46
 async-timeout==4.0.3; python_version < "3.11"
 attrs==24.2.0
 autograd==1.7.0
@@ -44,7 +44,7 @@ cycler==0.12.1
 dask==2024.8.0
 dask[array,distributed]==2024.8.0
 dask[array]==2024.8.0
-databricks-sdk==0.33.0
+databricks-sdk==0.34.0
 deprecated==1.2.14
 distributed==2024.8.0
 docker==7.1.0
@@ -54,7 +54,7 @@ einops==0.8.0
 elementpath==4.5.0
 escnn==1.0.11
 exceptiongroup==1.2.2; python_version < "3.11"
-fasteners==0.19
+fasteners==0.19; sys_platform != "emscripten"
 filelock==3.16.1
 fire==0.7.0
 flask==3.0.3
@@ -82,8 +82,8 @@ imageio==2.27.0
 imageio-ffmpeg==0.5.1
 imageio[ffmpeg]==2.27.0
 importlib-metadata==8.4.0
-importlib-resources==6.4.5; python_version < "3.10" or sys_platform != "emscripten"
-itkwasm==1.0b178
+importlib-resources==6.4.5; python_version < "3.12" or sys_platform != "emscripten"
+itkwasm==1.0b179
 itkwasm-downsample==1.4.2
 itkwasm-downsample-emscripten==1.4.2; sys_platform == "emscripten"
 itkwasm-downsample-wasi==1.4.2; sys_platform != "emscripten"
@@ -102,7 +102,7 @@ lxml==4.9.4
 mako==1.3.5
 markdown==3.7
 markdown-it-py==3.0.0
-markupsafe==2.1.5
+markupsafe==3.0.1
 matplotlib==3.9.2
 mdurl==0.1.2
 mlflow==2.16.2
@@ -146,6 +146,7 @@ pillow==10.4.0
 platformdirs==4.3.6
 positional-encodings==6.0.3
 prettytable==3.11.0
+propcache==0.2.0
 protobuf==5.28.2
 psutil==6.0.0
 py3nj==0.1.2
@@ -166,10 +167,10 @@ python-dateutil==2.9.0.post0
 python-dotenv==1.0.1
 pytorch-lightning==2.3.3
 pytz==2024.2
-pywin32==306; sys_platform == "win32"
+pywin32==307; sys_platform == "win32"
 pyyaml==6.0.2
 requests==2.32.3
-rich==13.9.1
+rich==13.9.2
 rich-argparse==1.5.2
 rsa==4.9
 s3fs==2023.3.0
@@ -188,11 +189,11 @@ sqlparse==0.5.1
 stevedore==5.3.0
 sympy==1.13.3
 tblib==3.0.0
-termcolor==2.4.0
+termcolor==2.5.0
 threadpoolctl==3.5.0
-tifffile==2023.2.28
+tifffile==2024.8.30
 timm==1.0.9
-toolz==0.12.1
+toolz==1.0.0
 torch==2.0.1
 torchmetrics==1.4.2
 torchvision==0.15.2
@@ -209,10 +210,10 @@ wcwidth==0.2.13
 werkzeug==3.0.4
 wheel==0.44.0
 wrapt==1.16.0
-xarray==2024.7.0
+xarray==2023.1.0
 xmlschema==3.4.2
 xsdata==24.3.1
-yarl==1.13.1
-zarr==2.15.0
+yarl==1.14.0
+zarr==2.17.2
 zict==3.0.0
 zipp==3.20.2