version_requirements.txt

Package                          Version                             Editable project location
-------------------------------- ----------------------------------- ----------------------------------------
absl-py                          2.3.1
accelerate                       1.13.0
aiohappyeyeballs                 2.6.1
aiohttp                          3.13.3
aiosignal                        1.4.0
alabaster                        1.0.0
anndata                          0.12.10
annotated-doc                    0.0.4
annotated-types                  0.7.0
antlr4-python3-runtime           4.9.3
anyio                            4.12.1
apex                             0.1
argon2-cffi                      25.1.0
argon2-cffi-bindings             25.1.0
array-api-compat                 1.14.0
arrow                            1.4.0
astir                            0.1.5
asttokens                        3.0.1
astunparse                       1.6.3
async-lru                        2.0.5
attrs                            25.4.0
audioread                        3.1.0
autodocsumm                      0.2.14
autograd                         1.8.0
autograd-gamma                   0.5.0
babel                            2.17.0
beautifulsoup4                   4.14.3
biopython                        1.86
black                            25.12.0
bleach                           6.3.0
blessings                        1.7
blosc2                           4.1.2
bokeh                            3.6.3
build                            1.4.0
cachetools                       7.0.5
cellpose                         4.0.9
certifi                          2026.1.4
cffi                             2.0.0
charset-normalizer               3.4.4
click                            8.2.1
cloudpickle                      3.1.2
cmake                            3.31.6
codecov                          2.1.13
colorama                         0.4.6
colorcet                         3.1.0
coloredlogs                      15.0.1
colour-runner                    0.1.1
comm                             0.2.3
contourpy                        1.3.3
coverage                         7.13.5
cucim-cu13                       26.2.1
cuda-bindings                    13.2.0
cuda-core                        0.3.2
cuda-pathfinder                  1.5.1
cuda-python                      13.2.0
cuda-toolkit                     13.2.0
cudf-cu13                        26.2.1
cugraph-cu13                     26.2.0
cuml-cu13                        26.2.0
cupy-cuda13x                     14.0.1
cuvs-cu13                        26.2.0
cuxfilter-cu13                   26.2.0
cycler                           0.12.1
Cython                           3.2.4
dask                             2026.1.1
dask-cuda                        26.2.0
dask-cudf-cu13                   26.2.1
datashader                       0.19.0
dbus-python                      1.3.2
debugpy                          1.8.19
decorator                        5.2.1
deepdiff                         8.6.1
defusedxml                       0.7.1
dill                             0.4.0
distlib                          0.4.0
distributed                      2026.1.1
distributed-ucxx-cu13            0.48.0
distro                           1.9.0
dllist                           2.0.0
dm-tree                          0.1.9
docstring_parser                 0.17.0
docutils                         0.21.2
donfig                           0.8.1.post1
einops                           0.8.1
execnet                          2.1.2
executing                        2.2.1
expecttest                       0.3.0
fair-esm                         2.0.0
Farama-Notifications             0.0.6
fastcluster                      1.3.0
fastjsonschema                   2.21.2
fastremap                        1.17.7
fcsparser                        0.2.4
filelock                         3.25.2
fill_voids                       2.1.1
flash_attn                       2.7.4.post1+nv26.1.42222806
flow_matching                    1.0.10
FlowCytometryTools               0.5.1
fonttools                        4.61.1
formulaic                        1.2.1
fqdn                             1.5.1
frozenlist                       1.8.0
fsspec                           2025.10.0
gast                             0.6.0
geopandas                        1.1.3
gitdb                            4.0.12
GitPython                        3.1.46
google-crc32c                    1.8.0
grpcio                           1.76.0
gymnasium                        1.3.0
h11                              0.16.0
h5py                             3.16.0
hf-xet                           1.2.0
holoviews                        1.20.2
httpcore                         1.0.9
httpx                            0.28.1
huggingface_hub                  1.3.1
humanfriendly                    10.0
hypothesis                       6.130.8
idna                             3.11
imagecodecs                      2026.3.6
ImageIO                          2.37.3
imagesize                        2.0.0
imbalanced-learn                 0.14.1
importlib_metadata               8.7.1
iniconfig                        2.3.0
intel-openmp                     2021.4.0
interface-meta                   1.3.0
ipykernel                        7.1.0
ipython                          9.9.0
ipython_pygments_lexers          1.1.1
ipywidgets                       8.1.8
isoduration                      20.11.0
isort                            7.0.0
jedi                             0.19.2
Jinja2                           3.1.6
jiter                            0.13.0
joblib                           1.5.3
json5                            0.13.0
jsonpointer                      3.0.0
jsonschema                       4.26.0
jsonschema-specifications        2025.9.1
jupyter_client                   8.8.0
jupyter_core                     5.9.1
jupyter-events                   0.12.0
jupyter-lsp                      2.3.0
jupyter_server                   2.17.0
jupyter_server_proxy             4.5.0
jupyter_server_terminals         0.5.3
jupyterlab                       4.5.1
jupyterlab_code_formatter        3.0.2
jupyterlab_pygments              0.3.0
jupyterlab_server                2.28.0
jupyterlab_tensorboard_pro       4.0.0
jupyterlab_widgets               3.0.16
jupytext                         1.18.1
kiwisolver                       1.4.9
lark                             1.3.1
lazy_loader                      0.4
legacy-api-wrap                  1.5
libcudf-cu13                     26.2.1
libcugraph-cu13                  26.2.0
libcuml-cu13                     26.2.0
libcuvs-cu13                     26.2.0
libkvikio-cu13                   26.2.0
libraft-cu13                     26.2.0
librmm-cu13                      26.2.0
librosa                          0.11.0
librt                            0.8.1
libucx-cu13                      1.19.0
libucxx-cu13                     0.48.0
lifelines                        0.30.3
lightning-thunder                0.2.7.dev0
lightning-utilities              0.15.2
linkify-it-py                    2.1.0
lintrunner                       0.12.11
llvmlite                         0.44.0
locket                           1.0.0
loguru                           0.7.3
loompy                           3.0.8
looseversion                     1.3.0
mahotas                          1.4.18
makefun                          1.16.0
Markdown                         3.10
markdown-it-py                   4.0.0
MarkupSafe                       3.0.3
matplotlib                       3.10.8
matplotlib-inline                0.2.1
mdit-py-plugins                  0.5.0
mdurl                            0.1.2
mistune                          3.2.0
mkl                              2021.1.1
mkl-devel                        2021.1.1
mkl-include                      2021.1.1
ml_dtypes                        0.5.4
mock                             5.2.0
mpmath                           1.3.0
msgpack                          1.1.2
multidict                        6.7.0
multipledispatch                 1.0.0
multiprocess                     0.70.18
mypy                             1.19.1
mypy_extensions                  1.1.0
narwhals                         2.19.0
natsort                          8.4.0
nbclient                         0.10.4
nbconvert                        7.16.6
nbformat                         5.10.4
nbsphinx                         0.9.8
nbsphinx-link                    1.3.1
ndindex                          1.10.1
nest-asyncio                     1.6.0
networkx                         3.6.1
ninja                            1.13.0
notebook                         7.5.1
notebook_shim                    0.2.4
numba                            0.61.2
numba-cuda                       0.22.2
numcodecs                        0.16.5
numexpr                          2.14.1
numpy                            2.1.0
numpy-groupies                   0.11.3
nv-one-logger-core               2.3.1
nv-one-logger-training-telemetry 2.3.1
nvfuser                          0.2.34+git5d8efce
nvidia-cublas                    13.3.0.5
nvidia-cuda-cccl                 13.2.27
nvidia-cuda-crt                  13.2.51
nvidia-cuda-nvcc                 13.2.51
nvidia-cuda-nvrtc                13.2.51
nvidia-cuda-runtime              13.2.51
nvidia-cuda-runtime-cu13         0.0.0a0
nvidia-cudnn-frontend            1.17.0
nvidia-cufft                     12.2.0.37
nvidia-curand                    10.4.2.51
nvidia-cusolver                  12.1.0.51
nvidia-cusparse                  12.7.9.17
nvidia-dali-cuda130              1.53.0
nvidia-libnvcomp-cu13            5.1.0.21
nvidia-ml-py                     13.590.44
nvidia-modelopt                  0.40.0
nvidia-nccl-cu13                 2.29.7
nvidia-nvimgcodec-cu13           0.7.0.49
nvidia-nvjitlink                 13.2.51
nvidia-nvjpeg                    13.0.2.28
nvidia-nvjpeg2k-cu13             0.9.1.47
nvidia-nvtiff-cu13               0.6.0.78
nvidia-nvvm                      13.2.51
nvidia-resiliency-ext            0.5.0
nvtx                             0.2.14
nx-cugraph-cu13                  26.2.0
omegaconf                        2.3.0
onnx                             1.18.0
onnx-ir                          0.1.14
onnxscript                       0.5.7
openai                           2.28.0
opencv-python                    4.13.0.92
opencv-python-headless           4.13.0.92
openslide-bin                    4.0.0.12
openslide-python                 1.4.3
opt_einsum                       3.4.0
optree                           0.18.0
orderly-set                      5.5.0
overrides                        7.7.0
packaging                        26.0
pandas                           2.3.3
pandocfilters                    1.5.1
panel                            1.7.5
param                            2.3.3
parso                            0.8.5
partd                            1.4.2
pathspec                         1.0.3
patsy                            1.0.2
pexpect                          4.9.0
pillow                           12.1.0
pip                              26.0.1
platformdirs                     4.9.4
pluggy                           1.6.0
polygraphy                       0.49.26
pooch                            1.8.2
POT                              0.9.6.post1
prometheus_client                0.23.1
prompt_toolkit                   3.0.52
propcache                        0.4.1
protobuf                         6.33.4
psutil                           7.2.1
ptyprocess                       0.7.0
PuLP                             3.3.0
pure_eval                        0.2.3
py-cpuinfo                       9.0.0
pyarrow                          22.0.0
pybind11                         3.0.1
pybind11-global                  3.0.1
pycocotools                      2.0+nv0.8.1
pycparser                        2.23
pyct                             0.6.0
pydantic                         2.12.5
pydantic_core                    2.41.5
Pygments                         2.19.2
PyGObject                        3.48.2
pylibcudf-cu13                   26.2.1
pylibcugraph-cu13                26.2.0
pylibraft-cu13                   26.2.0
pynndescent                      0.6.0
pyogrio                          0.12.1
pyparsing                        3.3.1
pyproj                           3.7.2
pyproject-api                    1.10.0
pyproject_hooks                  1.2.0
pytest                           8.1.1
pytest-flakefinder               1.1.0
pytest-rerunfailures             16.1
pytest-shard                     0.1.2
pytest-xdist                     3.8.0
python-dateutil                  2.9.0.post0
python-discovery                 1.1.3
python_hostlist                  2.3.0
python-json-logger               4.0.0
pytokens                         0.3.0
pytorch-triton                   3.6.0+git5261b273.nv26.1
pytz                             2025.2
pyviz_comms                      3.0.6
PyYAML                           6.0.3
pyzmq                            27.1.0
raft-dask-cu13                   26.2.0
rapids-dask-dependency           26.2.0
rapids-logger                    0.2.3
readimc                          0.9.2
referencing                      0.37.0
regex                            2025.11.3
requests                         2.32.5
rfc3339-validator                0.1.4
rfc3986-validator                0.1.1
rfc3987-syntax                   1.1.0
rich                             14.2.0
rmm-cu13                         26.2.0
roifile                          2026.2.10
roman-numerals                   4.1.0
roman-numerals-py                4.1.0
rootpath                         0.1.1
rpds-py                          0.30.0
safetensors                      0.7.0
scikit-image                     0.25.2
scikit-learn                     1.8.0
scipy                            1.16.3
seaborn                          0.13.2
segment-anything                 1.0
Send2Trash                       2.0.0
sentencepiece                    0.2.1
sentry-sdk                       2.54.0
setuptools                       82.0.1
shapely                          2.0.7
shellingham                      1.5.4
simpervisor                      1.0.0
six                              1.16.0
sklearn-compat                   0.1.5
smmap                            5.0.3
sniffio                          1.3.1
snowballstemmer                  3.0.1
sortedcontainers                 2.4.0
soundfile                        0.13.1
soupsieve                        2.8.1
soxr                             1.0.0
Sphinx                           8.2.3
sphinx-autodoc-typehints         3.5.2
sphinx_rtd_theme                 3.1.0
sphinxcontrib-applehelp          2.0.0
sphinxcontrib-devhelp            2.0.0
sphinxcontrib-htmlhelp           2.1.0
sphinxcontrib-jquery             4.1
sphinxcontrib-jsmath             1.0.1
sphinxcontrib-qthelp             2.0.0
sphinxcontrib-serializinghtml    2.0.0
spin                             0.15
stack-data                       0.6.3
statsmodels                      0.14.6
StrEnum                          0.4.15
sympy                            1.14.0
tables                           3.11.1
tabulate                         0.9.0
tbb                              2021.13.1
tblib                            3.2.2
tensorboard                      2.20.0
tensorboard-data-server          0.7.2
tensorrt                         10.14.1.48
termcolor                        3.3.0
terminado                        0.18.1
threadpoolctl                    3.6.0
tifffile                         2026.3.3
timm                             1.0.25
tinycss2                         1.4.0
tokenizers                       0.22.2
toml                             0.10.2
tomli                            2.3.0
tomli_w                          1.2.0
toolz                            1.1.0
torch                            2.10.0a0+a36e1d39eb.nv26.1.42222806
torch_scatter                    2.1.2
torch_tensorrt                   2.10.0a0
torchao                          0.15.0+git1272f3cf
torchdata                        0.11.0
torchdiffeq                      0.2.5
torchprofile                     0.0.4
torchtitan                       0.2.0+gite98ae995
torchvision                      0.25.0a0+6b56de1c.nv26.1.42222806
tornado                          6.5.4
tox                              4.50.0
tqdm                             4.67.1
traitlets                        5.14.3
transformer_engine               2.11.0+c188b533
transformers                     5.3.0
treelite                         4.7.0
triton_kernels                   1.0.0+git5261b273.nv26.1
typeguard                        4.4.4
typer                            0.24.1
typer-slim                       0.21.1
typing_extensions                4.15.0
typing-inspection                0.4.2
tyro                             1.0.3
tzdata                           2025.3
uc-micro-py                      2.0.0
ucxx-cu13                        0.48.0
umap-learn                       0.5.11
uri-template                     1.3.0
urllib3                          2.6.3
uv                               0.9.24
virtualenv                       21.2.0
wandb                            0.25.1
wcwidth                          0.2.14
webcolors                        25.10.0
webencodings                     0.5.1
websocket-client                 1.9.0
Werkzeug                         3.1.5
wheel                            0.46.3
widgetsnbextension               4.0.15
wrapt                            2.0.1
xarray                           2026.2.0
xdoctest                         1.0.2
xxhash                           3.6.0
xyzservices                      2026.3.0
yarl                             1.22.0
zarr                             3.1.5
zict                             3.0.0
zipp                             3.23.0