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requirements.lock
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requirements.lock
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# generated by rye
# use `rye lock` or `rye sync` to update this lockfile
#
# last locked with the following flags:
# pre: false
# features: []
# all-features: false
# with-sources: false
-e file:.
aiobotocore==2.12.3
# via s3fs
aiofiles==23.2.1
# via vitessce
aiohttp==3.9.5
# via aiobotocore
# via jupyter-server-proxy
# via ome-zarr
# via s3fs
aioitertools==0.11.0
# via aiobotocore
aiosignal==1.3.1
# via aiohttp
anndata==0.10.7
# via pytometry
# via readfcs
# via scanpy
# via vitessce
# via vitessce-suts
anndata-repr @ git+https://github.com/manzt/anndata-repr@ceada3b57e95af97fcf45c21cf2d5978e797d603
# via vitessce-suts
anyio==4.3.0
# via httpx
# via jupyter-server
anywidget==0.9.9
# via vitessce
appnope==0.1.4
# via ipykernel
argon2-cffi==23.1.0
# via jupyter-server
argon2-cffi-bindings==21.2.0
# via argon2-cffi
array-api-compat==1.6
# via anndata
arrow==1.3.0
# via isoduration
asciitree==0.3.3
# via zarr
asttokens==2.4.1
# via stack-data
async-lru==2.0.4
# via jupyterlab
attrs==23.2.0
# via aiohttp
# via jsonschema
# via referencing
babel==2.14.0
# via jupyterlab-server
beautifulsoup4==4.12.3
# via nbconvert
black==24.4.0
# via vitessce
bleach==6.1.0
# via nbconvert
bokeh==3.4.1
# via dask
# via dask-labextension
botocore==1.34.69
# via aiobotocore
certifi==2024.2.2
# via httpcore
# via httpx
# via requests
cffi==1.16.0
# via argon2-cffi-bindings
charset-normalizer==3.3.2
# via requests
click==8.1.7
# via black
# via dask
# via distributed
# via uvicorn
cloudpickle==3.0.0
# via dask
# via distributed
colorcet==3.1.0
# via datashader
comm==0.2.2
# via ipykernel
# via ipywidgets
contourpy==1.2.1
# via bokeh
# via matplotlib
cycler==0.12.1
# via matplotlib
dask==2024.4.2
# via dask-expr
# via datashader
# via distributed
# via ome-zarr
# via vitessce-suts
dask-expr==1.0.12
# via dask
dask-labextension==7.0.0
# via vitessce-suts
datashader==0.16.1
# via pytometry
debugpy==1.8.1
# via ipykernel
decorator==5.1.1
# via ipython
defusedxml==0.7.1
# via nbconvert
distributed==2024.4.2
# via dask
# via dask-labextension
# via ome-zarr
executing==2.0.1
# via stack-data
fasteners==0.19
# via zarr
fastjsonschema==2.19.1
# via nbformat
fcsparser==0.2.8
# via readfcs
fonttools==4.51.0
# via matplotlib
fqdn==1.5.1
# via jsonschema
frozenlist==1.4.1
# via aiohttp
# via aiosignal
fsspec==2024.3.1
# via dask
# via ome-zarr
# via s3fs
generate-tiff-offsets==0.1.7
# via vitessce
h11==0.14.0
# via httpcore
# via uvicorn
h5py==3.11.0
# via anndata
# via scanpy
httpcore==1.0.5
# via httpx
httpx==0.27.0
# via jupyterlab
idna==3.7
# via anyio
# via httpx
# via jsonschema
# via requests
# via yarl
igraph==0.11.4
# via leidenalg
# via scanpy
imageio==2.34.1
# via scikit-image
importlib-metadata==7.1.0
# via dask
# via nbproject
ipykernel==6.29.4
# via jupyterlab
ipylab==1.0.0
# via nbproject
ipython==8.23.0
# via ipykernel
# via ipywidgets
ipywidgets==8.1.2
# via anywidget
# via ipylab
isoduration==20.11.0
# via jsonschema
jedi==0.19.1
# via ipython
jinja2==3.1.3
# via bokeh
# via dask
# via distributed
# via jupyter-server
# via jupyterlab
# via jupyterlab-server
# via nbconvert
jmespath==1.0.1
# via botocore
joblib==1.4.0
# via pynndescent
# via scanpy
# via scikit-learn
json5==0.9.25
# via jupyterlab-server
jsonpointer==2.4
# via jsonschema
jsonschema==4.21.1
# via jupyter-events
# via jupyterlab-server
# via nbformat
# via vitessce
jsonschema-specifications==2023.12.1
# via jsonschema
jupyter-client==8.6.1
# via ipykernel
# via jupyter-server
# via nbclient
jupyter-core==5.7.2
# via ipykernel
# via jupyter-client
# via jupyter-server
# via jupyterlab
# via nbclient
# via nbconvert
# via nbformat
jupyter-events==0.10.0
# via jupyter-server
jupyter-lsp==2.2.5
# via jupyterlab
jupyter-server==2.14.0
# via jupyter-lsp
# via jupyter-server-proxy
# via jupyterlab
# via jupyterlab-server
# via notebook
# via notebook-shim
jupyter-server-proxy==4.1.2
# via dask-labextension
# via vitessce
jupyter-server-terminals==0.5.3
# via jupyter-server
jupyterlab==4.1.6
# via dask-labextension
# via notebook
# via vitessce-suts
jupyterlab-pygments==0.3.0
# via nbconvert
jupyterlab-server==2.27.0
# via jupyterlab
# via notebook
jupyterlab-widgets==3.0.10
# via ipywidgets
kiwisolver==1.4.5
# via matplotlib
lamin-utils==0.13.2
# via nbproject
# via readfcs
lazy-loader==0.4
# via scikit-image
legacy-api-wrap==1.4
# via scanpy
leidenalg==0.10.2
# via scanpy
llvmlite==0.42.0
# via numba
# via pynndescent
locket==1.0.0
# via distributed
# via partd
lz4==4.3.3
# via dask
markupsafe==2.1.5
# via jinja2
# via nbconvert
matplotlib==3.8.4
# via pytometry
# via scanpy
# via seaborn
matplotlib-inline==0.1.7
# via ipykernel
# via ipython
mistune==3.0.2
# via nbconvert
msgpack==1.0.8
# via distributed
multidict==6.0.5
# via aiohttp
# via yarl
multipledispatch==1.0.0
# via datashader
mypy-extensions==1.0.0
# via black
natsort==8.4.0
# via anndata
# via scanpy
nbclient==0.10.0
# via nbconvert
nbconvert==7.16.3
# via jupyter-server
nbformat==5.10.4
# via jupyter-server
# via nbclient
# via nbconvert
nbproject==0.10.1
# via pytometry
negspy==0.2.24
# via vitessce
nest-asyncio==1.6.0
# via ipykernel
networkx==3.3
# via scanpy
# via scikit-image
notebook==7.1.3
# via vitessce-suts
notebook-shim==0.2.4
# via jupyterlab
# via notebook
numba==0.59.1
# via datashader
# via pynndescent
# via scanpy
# via umap-learn
numcodecs==0.12.1
# via vitessce
# via zarr
numpy==1.26.4
# via anndata
# via anndata-repr
# via bokeh
# via contourpy
# via dask
# via datashader
# via fcsparser
# via h5py
# via imageio
# via matplotlib
# via numba
# via numcodecs
# via ome-zarr
# via pandas
# via patsy
# via pyarrow
# via pytometry
# via pywavelets
# via scanpy
# via scikit-image
# via scikit-learn
# via scipy
# via seaborn
# via statsmodels
# via tifffile
# via umap-learn
# via vitessce
# via xarray
# via zarr
ome-zarr==0.8.3
# via vitessce
orjson==3.10.1
# via nbproject
overrides==7.7.0
# via jupyter-server
packaging==24.0
# via anndata
# via black
# via bokeh
# via dask
# via distributed
# via ipykernel
# via jupyter-server
# via jupyterlab
# via jupyterlab-server
# via lazy-loader
# via matplotlib
# via nbconvert
# via nbproject
# via scanpy
# via scikit-image
# via statsmodels
# via xarray
pandas==2.2.2
# via anndata
# via anndata-repr
# via bokeh
# via dask
# via dask-expr
# via datashader
# via fcsparser
# via pytometry
# via scanpy
# via seaborn
# via statsmodels
# via vitessce
# via xarray
pandocfilters==1.5.1
# via nbconvert
param==2.1.0
# via datashader
# via pyct
parso==0.8.4
# via jedi
partd==1.4.1
# via dask
pathspec==0.12.1
# via black
patsy==0.5.6
# via scanpy
# via statsmodels
pexpect==4.9.0
# via ipython
pillow==10.3.0
# via bokeh
# via datashader
# via imageio
# via matplotlib
# via scikit-image
platformdirs==4.2.0
# via black
# via jupyter-core
prometheus-client==0.20.0
# via jupyter-server
prompt-toolkit==3.0.43
# via ipython
psutil==5.9.8
# via distributed
# via ipykernel
psygnal==0.11.0
# via anywidget
ptyprocess==0.7.0
# via pexpect
# via terminado
pure-eval==0.2.2
# via stack-data
pyarrow==16.0.0
# via dask
# via dask-expr
pyarrow-hotfix==0.6
# via dask
pycparser==2.22
# via cffi
pyct==0.5.0
# via datashader
pydantic==1.10.15
# via nbproject
pygments==2.17.2
# via ipython
# via nbconvert
pynndescent==0.5.12
# via scanpy
# via umap-learn
pyparsing==3.1.2
# via matplotlib
python-dateutil==2.9.0.post0
# via arrow
# via botocore
# via jupyter-client
# via matplotlib
# via pandas
python-json-logger==2.0.7
# via jupyter-events
pytometry==0.1.4
# via vitessce-suts
pytz==2024.1
# via pandas
pywavelets==1.6.0
# via scikit-image
pyyaml==6.0.1
# via bokeh
# via dask
# via distributed
# via jupyter-events
# via nbproject
pyzmq==26.0.2
# via ipykernel
# via jupyter-client
# via jupyter-server
readfcs==1.1.8
# via pytometry
referencing==0.34.0
# via jsonschema
# via jsonschema-specifications
# via jupyter-events
requests==2.31.0
# via datashader
# via jupyterlab-server
# via ome-zarr
rfc3339-validator==0.1.4
# via jsonschema
# via jupyter-events
rfc3986-validator==0.1.1
# via jsonschema
# via jupyter-events
rpds-py==0.18.0
# via jsonschema
# via referencing
s3fs==2024.3.1
# via fsspec
scanpy==1.10.1
# via pytometry
# via vitessce
# via vitessce-suts
scikit-image==0.20.0
# via ome-zarr
scikit-learn==1.4.2
# via pynndescent
# via scanpy
# via umap-learn
scipy==1.13.0
# via anndata
# via datashader
# via pynndescent
# via pytometry
# via scanpy
# via scikit-image
# via scikit-learn
# via statsmodels
# via umap-learn
# via vitessce
seaborn==0.13.2
# via pytometry
# via scanpy
send2trash==1.8.3
# via jupyter-server
session-info==1.0.0
# via scanpy
# via vitessce-suts
simpervisor==1.0.0
# via jupyter-server-proxy
six==1.16.0
# via asttokens
# via bleach
# via patsy
# via python-dateutil
# via rfc3339-validator
sniffio==1.3.1
# via anyio
# via httpx
sortedcontainers==2.4.0
# via distributed
soupsieve==2.5
# via beautifulsoup4
stack-data==0.6.3
# via ipython
starlette==0.14.0
# via vitessce
statsmodels==0.14.2
# via scanpy
stdlib-list==0.10.0
# via session-info
tblib==3.0.0
# via distributed
terminado==0.18.1
# via jupyter-server
# via jupyter-server-terminals
texttable==1.7.0
# via igraph
threadpoolctl==3.4.0
# via scikit-learn
tifffile==2020.10.1
# via generate-tiff-offsets
# via scikit-image
# via vitessce
tinycss2==1.2.1
# via nbconvert
toolz==0.12.1
# via dask
# via datashader
# via distributed
# via ome-zarr
# via partd
tornado==6.4
# via bokeh
# via distributed
# via ipykernel
# via jupyter-client
# via jupyter-server
# via jupyter-server-proxy
# via jupyterlab
# via notebook
# via terminado
tqdm==4.66.2
# via scanpy
# via umap-learn
# via vitessce
traitlets==5.14.3
# via comm
# via ipykernel
# via ipython
# via ipywidgets
# via jupyter-client
# via jupyter-core
# via jupyter-events
# via jupyter-server
# via jupyter-server-proxy
# via jupyterlab
# via matplotlib-inline
# via nbclient
# via nbconvert
# via nbformat
types-python-dateutil==2.9.0.20240316
# via arrow
typing-extensions==4.11.0
# via anywidget
# via ipython
# via pydantic
tzdata==2024.1
# via pandas
ujson==5.9.0
# via vitessce
umap-learn==0.5.6
# via scanpy
uri-template==1.3.0
# via jsonschema
urllib3==2.2.1
# via botocore
# via distributed
# via requests
uvicorn==0.29.0
# via vitessce
vitessce==3.2.5
# via vitessce-suts
wcwidth==0.2.13
# via prompt-toolkit
webcolors==1.13
# via jsonschema
webencodings==0.5.1
# via bleach
# via tinycss2
websocket-client==1.7.0
# via jupyter-server
widgetsnbextension==4.0.10
# via ipywidgets
wrapt==1.16.0
# via aiobotocore
xarray==2024.3.0
# via datashader
xyzservices==2024.4.0
# via bokeh
yarl==1.9.4
# via aiohttp
zarr==2.17.2
# via ome-zarr
# via vitessce
# via vitessce-suts
zict==3.0.0
# via distributed
zipp==3.18.1
# via importlib-metadata