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requirements.txt
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462 lines (461 loc) · 8.15 KB
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#
# This file is autogenerated by pip-compile with Python 3.14
# by the following command:
#
# pip-compile pyproject.toml
#
aiobotocore==3.3.0
# via s3fs
aiohappyeyeballs==2.6.1
# via aiohttp
aiohttp==3.13.5
# via
# aiobotocore
# fsspec
# ome-zarr
# s3fs
aioitertools==0.13.0
# via aiobotocore
aiosignal==1.4.0
# via aiohttp
anndata==0.12.10
# via
# annsel
# dummy-anndata
# scanpy
# spatialdata
annsel==0.1.2
# via spatialdata
array-api-compat==1.14.0
# via anndata
attrs==26.1.0
# via aiohttp
botocore==1.42.70
# via aiobotocore
certifi==2026.2.25
# via
# pyogrio
# pyproj
# requests
charset-normalizer==3.4.6
# via requests
click==8.3.1
# via
# dask
# distributed
# spatialdata
cloudpickle==3.1.2
# via
# dask
# distributed
colorcet==3.1.0
# via datashader
contourpy==1.3.3
# via matplotlib
cycler==0.12.1
# via matplotlib
dask[array,dataframe]==2026.1.1
# via
# dask-image
# distributed
# multiscale-spatial-image
# ome-zarr
# spatialdata
dask-image==2025.11.0
# via spatialdata
datashader==0.19.0
# via spatialdata
deprecated==1.3.1
# via ome-zarr
distributed==2026.1.1
# via spatialdata
donfig==0.8.1.post1
# via zarr
dummy-anndata==0.0.3
# via dummy-spatialdata (pyproject.toml)
fast-array-utils[accel,sparse]==1.4
# via scanpy
fonttools==4.62.1
# via matplotlib
frozenlist==1.8.0
# via
# aiohttp
# aiosignal
fsspec[http,s3]==2026.3.0
# via
# dask
# ome-zarr
# s3fs
# spatialdata
# universal-pathlib
geopandas==1.1.3
# via
# dummy-spatialdata (pyproject.toml)
# spatialdata
google-crc32c==1.8.0
# via zarr
h5py==3.16.0
# via
# anndata
# scanpy
idna==3.11
# via
# requests
# yarl
imageio==2.37.3
# via
# pims
# scikit-image
jinja2==3.1.6
# via distributed
jmespath==1.1.0
# via
# aiobotocore
# botocore
joblib==1.5.3
# via
# pynndescent
# scanpy
# scikit-learn
kiwisolver==1.5.0
# via matplotlib
lazy-loader==0.5
# via scikit-image
legacy-api-wrap==1.5
# via
# anndata
# scanpy
llvmlite==0.47.0
# via
# numba
# pynndescent
locket==1.0.0
# via
# distributed
# partd
markdown-it-py==4.0.0
# via rich
markupsafe==3.0.3
# via jinja2
matplotlib==3.10.8
# via
# matplotlib-scalebar
# scanpy
# seaborn
# spatialdata-plot
# xarray-spatial
matplotlib-scalebar==0.9.0
# via spatialdata-plot
mdurl==0.1.2
# via markdown-it-py
more-itertools==10.8.0
# via annsel
msgpack==1.1.2
# via distributed
multidict==6.7.1
# via
# aiobotocore
# aiohttp
# yarl
multipledispatch==1.0.0
# via datashader
multiscale-spatial-image==2.0.3
# via spatialdata
narwhals[pandas]==2.18.1
# via annsel
natsort==8.4.0
# via
# anndata
# scanpy
networkx==3.6.1
# via
# scanpy
# scikit-image
# spatialdata
numba==0.65.0
# via
# datashader
# fast-array-utils
# pynndescent
# scanpy
# spatialdata
# umap-learn
# xarray-spatial
numcodecs==0.16.5
# via zarr
numpy==2.4.4
# via
# anndata
# contourpy
# dask
# dask-image
# datashader
# fast-array-utils
# geopandas
# h5py
# imageio
# matplotlib
# multiscale-spatial-image
# numba
# numcodecs
# ome-zarr
# pandas
# patsy
# pims
# pyogrio
# scanpy
# scikit-image
# scikit-learn
# scipy
# seaborn
# shapely
# spatial-image
# spatialdata
# statsmodels
# tifffile
# umap-learn
# xarray
# xarray-dataclass
# xarray-spatial
# zarr
ome-zarr==0.14.0
# via spatialdata
packaging==26.0
# via
# anndata
# dask
# datashader
# distributed
# geopandas
# lazy-loader
# matplotlib
# pims
# pooch
# pyogrio
# scanpy
# scikit-image
# statsmodels
# xarray
# zarr
pandas==2.3.3
# via
# anndata
# dask
# dask-image
# datashader
# geopandas
# narwhals
# scanpy
# seaborn
# spatialdata
# statsmodels
# xarray
param==2.3.3
# via
# datashader
# pyct
partd==1.4.2
# via dask
pathlib-abc==0.5.2
# via universal-pathlib
patsy==1.0.2
# via
# scanpy
# statsmodels
pillow==12.2.0
# via
# dummy-spatialdata (pyproject.toml)
# imageio
# matplotlib
# scikit-image
pims==0.7
# via dask-image
platformdirs==4.9.4
# via pooch
pooch==1.9.0
# via
# annsel
# spatialdata
propcache==0.4.1
# via
# aiohttp
# yarl
psutil==7.2.2
# via distributed
pyarrow==23.0.1
# via
# dask
# spatialdata
pyct==0.6.0
# via datashader
pygments==2.20.0
# via rich
pynndescent==0.6.0
# via
# scanpy
# umap-learn
pyogrio==0.12.1
# via geopandas
pyparsing==3.3.2
# via matplotlib
pyproj==3.7.2
# via geopandas
python-dateutil==2.9.0.post0
# via
# aiobotocore
# botocore
# matplotlib
# multiscale-spatial-image
# pandas
pytz==2026.1.post1
# via pandas
pyyaml==6.0.3
# via
# dask
# distributed
# donfig
rangehttpserver==1.4.0
# via ome-zarr
requests==2.33.1
# via
# datashader
# dummy-spatialdata (pyproject.toml)
# ome-zarr
# pooch
rich==14.3.3
# via spatialdata
s3fs==2026.3.0
# via fsspec
scanpy==1.12
# via spatialdata-plot
scikit-image==0.26.0
# via
# ome-zarr
# spatialdata
scikit-learn==1.8.0
# via
# pynndescent
# scanpy
# spatialdata-plot
# umap-learn
scipy==1.17.1
# via
# anndata
# dask-image
# datashader
# fast-array-utils
# pynndescent
# scanpy
# scikit-image
# scikit-learn
# spatialdata
# statsmodels
# umap-learn
# xarray-spatial
seaborn==0.13.2
# via scanpy
session-info==1.0.1
# via dummy-anndata
session-info2==0.4
# via
# annsel
# scanpy
shapely==2.1.2
# via
# dummy-spatialdata (pyproject.toml)
# geopandas
# spatialdata
six==1.17.0
# via python-dateutil
slicerator==1.1.0
# via pims
sortedcontainers==2.4.0
# via distributed
spatial-image==1.2.3
# via
# multiscale-spatial-image
# spatialdata
spatialdata==0.7.2
# via
# dummy-spatialdata (pyproject.toml)
# spatialdata-plot
spatialdata-plot==0.3.2
# via dummy-spatialdata (pyproject.toml)
statsmodels==0.14.6
# via scanpy
stdlib-list==0.12.0
# via session-info
tblib==3.2.2
# via distributed
threadpoolctl==3.6.0
# via scikit-learn
tifffile==2026.3.3
# via
# dask-image
# pims
# scikit-image
toolz==1.1.0
# via
# dask
# datashader
# distributed
# ome-zarr
# partd
tornado==6.5.5
# via distributed
tqdm==4.67.3
# via
# annsel
# scanpy
# umap-learn
typing-extensions==4.15.0
# via
# numcodecs
# spatialdata
# xarray-dataclass
# zarr
tzdata==2025.3
# via pandas
umap-learn==0.5.11
# via scanpy
universal-pathlib==0.3.10
# via
# annsel
# spatialdata
urllib3==2.6.3
# via
# botocore
# distributed
# requests
wrapt==2.1.2
# via
# aiobotocore
# deprecated
xarray==2026.2.0
# via
# datashader
# multiscale-spatial-image
# spatial-image
# spatialdata
# xarray-dataclass
# xarray-spatial
xarray-dataclass==3.0.0
# via
# multiscale-spatial-image
# spatial-image
xarray-spatial==0.9.5
# via spatialdata
yarl==1.23.0
# via aiohttp
zarr==3.1.6
# via
# anndata
# multiscale-spatial-image
# ome-zarr
# spatialdata
zict==3.0.0
# via distributed
zstandard==0.25.0
# via xarray-spatial
# The following packages are considered to be unsafe in a requirements file:
# setuptools