reference_requirements.txt

absl-py==2.1.0
aiobotocore==2.17.0
aiofiles==24.1.0
aiohappyeyeballs==2.4.4
aiohttp==3.11.11
aioitertools==0.12.0
aiosignal==1.3.2
albucore==0.0.17
albumentations==1.4.16
alembic==1.14.0
annotated-types==0.7.0
antlr4-python3-runtime==4.9.3
anyio==4.8.0
apex @ file:///workspace/lib/apex
archspec @ file:///home/conda/feedstock_root/build_artifacts/archspec_1708969572489/work
argon2-cffi==23.1.0
argon2-cffi-bindings==21.2.0
arrow==1.3.0
asciitree==0.3.3
asttokens @ file:///home/conda/feedstock_root/build_artifacts/asttokens_1698341106958/work
astunparse==1.6.3
async-lru==2.0.4
attrs @ file:///home/conda/feedstock_root/build_artifacts/attrs_1722977137225/work
audiomentations==0.38.0
audioread==3.0.1
autocommand==2.2.2
av==14.0.1
babel==2.16.0
backoff==2.2.1
backports.tarfile==1.2.0
beautifulsoup4 @ file:///home/conda/feedstock_root/build_artifacts/beautifulsoup4_1705564648255/work
black==24.10.0
bleach==6.2.0
boltons @ file:///home/conda/feedstock_root/build_artifacts/boltons_1711936407380/work
boto3==1.35.93
botocore==1.35.93
Brotli @ file:///home/conda/feedstock_root/build_artifacts/brotli-split_1725267488082/work
catboost==1.2.7
causal-conv1d==1.5.0.post8
certifi @ file:///home/conda/feedstock_root/build_artifacts/certifi_1725278078093/work/certifi
cffi @ file:///home/conda/feedstock_root/build_artifacts/cffi_1725560564262/work
chardet @ file:///home/conda/feedstock_root/build_artifacts/chardet_1724954797915/work
charset-normalizer @ file:///home/conda/feedstock_root/build_artifacts/charset-normalizer_1728479282467/work
click @ file:///home/conda/feedstock_root/build_artifacts/click_1692311806742/work
cloudpickle==3.1.0
colorama @ file:///home/conda/feedstock_root/build_artifacts/colorama_1666700638685/work
coloredlogs==15.0.1
colorlog==6.9.0
comm==0.2.2
conda @ file:///home/conda/feedstock_root/build_artifacts/conda_1729155142459/work
conda-build @ file:///home/conda/feedstock_root/build_artifacts/conda-build_1727204250023/work
conda-libmamba-solver @ file:///home/conda/feedstock_root/build_artifacts/conda-libmamba-solver_1727359833193/work/src
conda-package-handling @ file:///home/conda/feedstock_root/build_artifacts/conda-package-handling_1729006966809/work
conda_index @ file:///home/conda/feedstock_root/build_artifacts/conda-index_1718383105992/work
conda_package_streaming @ file:///home/conda/feedstock_root/build_artifacts/conda-package-streaming_1729004031731/work
connected-components-3d==3.23.0
contourpy==1.3.1
copick==0.8.0
copick-utils @ git+https://github.com/copick/copick-utils.git@79315f3fca71ebfaaff54198b3e08a3bd2ebc63f
cryoet_data_portal==4.0.0
cycler==0.12.1
Cython==3.0.11
cython_bbox==0.1.5
dacite==1.8.1
dask==2024.12.1
datasets==3.2.0
debugpy==1.8.11
decorator @ file:///home/conda/feedstock_root/build_artifacts/decorator_1641555617451/work
deepmerge==2.0
defusedxml==0.7.1
detectron2 @ git+https://github.com/facebookresearch/detectron2.git@b1c43ffbc995426a9a6b5c667730091a384e0fa4
dicomsdl==0.109.4
dill==0.3.8
distinctipy==1.3.4
distributed==2024.12.1
distro @ file:///home/conda/feedstock_root/build_artifacts/distro_1704321475663/work
dm-tree==0.1.8
dnspython==2.7.0
docker-pycreds==0.4.0
einops==0.8.0
elfinder-client==2.1.62a3
et_xmlfile==2.0.0
eval_type_backport==0.2.2
exceptiongroup @ file:///home/conda/feedstock_root/build_artifacts/exceptiongroup_1720869315914/work
executing @ file:///home/conda/feedstock_root/build_artifacts/executing_1725214404607/work
exhaustive-weighted-random-sampler==0.0.2
expecttest==0.2.1
fastapi==0.115.6
fasteners==0.19
fastjsonschema==2.21.1
filelock @ file:///home/conda/feedstock_root/build_artifacts/filelock_1726613473834/work
flash-attn==2.7.3
flatbuffers==24.12.23
fonttools==4.55.3
fqdn==1.5.1
frozendict @ file:///home/conda/feedstock_root/build_artifacts/frozendict_1728841334936/work
frozenlist==1.5.0
fsspec==2024.12.0
fvcore==0.1.5.post20221221
gast==0.6.0
gitdb==4.0.12
GitPython==3.1.44
gql==3.5.0
graphql-core==3.2.5
graphviz==0.20.3
greenlet==3.1.1
grpcio==1.69.0
h11==0.14.0
h2 @ file:///home/conda/feedstock_root/build_artifacts/h2_1634280454336/work
-e git+https://github.com/dangnh0611/byu.git@ad02894956fd5ecd9f990b7e6dc09cde69a2a242#egg=hiera_transformer&subdirectory=third_party/hiera
hpack==4.0.0
htmlmin==0.1.12
httpcore==1.0.7
httptools==0.6.4
httpx==0.28.1
huggingface-hub==0.27.1
humanfriendly==10.0
hydra-core==1.3.2
hyperframe @ file:///home/conda/feedstock_root/build_artifacts/hyperframe_1619110129307/work
hypothesis==6.115.5
idna @ file:///home/conda/feedstock_root/build_artifacts/idna_1726459485162/work
ImageHash==4.3.1
imageio==2.36.1
imjoy-elfinder==0.1.62
imjoy-rpc==0.5.59
imjoy-utils==0.1.2
imjoy_jupyterlab_extension==0.2.6
importlib_metadata==8.5.0
importlib_resources @ file:///home/conda/feedstock_root/build_artifacts/importlib_resources_1725921340658/work
inflect==7.3.1
iopath==0.1.9
ipykernel==6.29.5
ipython @ file:///home/conda/feedstock_root/build_artifacts/ipython_1729866374957/work
ipywidgets==8.1.5
isoduration==20.11.0
itkwasm==1.0b185
itkwasm-downsample==1.5.0
itkwasm-downsample-wasi==1.5.0
itkwidgets==1.0a54
jaraco.context==5.3.0
jaraco.functools==4.0.1
jaraco.text==3.12.1
jedi @ file:///home/conda/feedstock_root/build_artifacts/jedi_1696326070614/work
Jinja2 @ file:///home/conda/feedstock_root/build_artifacts/jinja2_1715127149914/work
jmespath==1.0.1
joblib==1.4.2
json5==0.10.0
jsonpatch @ file:///home/conda/feedstock_root/build_artifacts/jsonpatch_1695536281965/work
jsonpointer @ file:///home/conda/feedstock_root/build_artifacts/jsonpointer_1725302941992/work
jsonschema @ file:///home/conda/feedstock_root/build_artifacts/jsonschema_1720529478715/work
jsonschema-specifications @ file:///tmp/tmpvslgxhz5/src
jupyter-events==0.11.0
jupyter-lsp==2.2.5
jupyter_client==8.6.3
jupyter_core==5.7.2
jupyter_server==2.15.0
jupyter_server_proxy==4.4.0
jupyter_server_terminals==0.5.3
jupyterlab==4.3.4
jupyterlab_pygments==0.3.0
jupyterlab_server==2.27.3
jupyterlab_widgets==3.0.13
kiwisolver==1.4.8
lap==0.5.12
lazy_loader==0.4
libarchive-c @ file:///home/conda/feedstock_root/build_artifacts/python-libarchive-c_1725302626023/work
libmambapy @ file:///home/conda/feedstock_root/build_artifacts/mamba-split_1727883551957/work/libmambapy
librosa==0.10.2.post1
lief @ file:///home/conda/feedstock_root/build_artifacts/lief_1726040283347/work/api/python
lightning==2.5.0.post0
lightning-utilities==0.11.9
lintrunner==0.12.5
llvmlite==0.43.0
locket==1.0.0
Mako==1.3.8
mamba @ file:///home/conda/feedstock_root/build_artifacts/mamba-split_1727883551957/work/mamba
mamba-ssm==2.2.4
mapply==0.1.27
Markdown==3.7
markdown-it-py==3.0.0
MarkupSafe @ file:///home/conda/feedstock_root/build_artifacts/markupsafe_1729351299924/work
matplotlib==3.9.4
matplotlib-inline @ file:///home/conda/feedstock_root/build_artifacts/matplotlib-inline_1713250518406/work
mdurl==0.1.2
menuinst @ file:///home/conda/feedstock_root/build_artifacts/menuinst_1725359023560/work
mistune==3.1.0
monai==1.4.0
more-itertools @ file:///home/conda/feedstock_root/build_artifacts/more-itertools_1725630081114/work
mpmath==1.3.0
msgpack==1.1.0
multidict==6.1.0
multimethod==1.12
multiprocess==0.70.16
munch==4.0.0
mypy-extensions==1.0.0
nbclient==0.10.2
nbconvert==7.16.5
nbformat==5.10.4
nest-asyncio==1.6.0
networkx==3.4.2
ngff-zarr==0.12.0
ninja==1.11.1.1
notebook==7.3.2
notebook_shim==0.2.4
numba==0.60.0
numcodecs==0.13.1
numpy==1.26.4
numpy-minmax==0.3.1
numpy-rms==0.4.2
nvidia-cublas-cu12==12.4.5.8
nvidia-cuda-cupti-cu12==12.4.127
nvidia-cuda-nvrtc-cu12==12.4.127
nvidia-cuda-runtime-cu12==12.4.127
nvidia-cudnn-cu12==9.1.0.70
nvidia-cufft-cu12==11.2.1.3
nvidia-curand-cu12==10.3.5.147
nvidia-cusolver-cu12==11.6.1.9
nvidia-cusparse-cu12==12.3.1.170
nvidia-dali-nightly-cuda120==1.45.0.dev20241203
nvidia-nccl-cu12==2.21.5
nvidia-nvimgcodec-cu12==0.3.0.5
nvidia-nvjitlink-cu12==12.4.127
nvidia-nvtx-cu12==12.4.127
ome-zarr==0.10.3
omegaconf==2.3.0
onnx==1.17.0
onnx-graphsurgeon==0.3.27
onnxoptimizer==0.3.13
onnxruntime-gpu==1.20.1
onnxsim==0.4.36
opencv-python-headless==4.10.0.84
openpyxl==3.1.5
optree==0.13.0
optuna==4.1.0
ordered-set==4.1.0
overrides==7.7.0
packaging @ file:///home/conda/feedstock_root/build_artifacts/packaging_1718189413536/work
pandas==2.2.3
pandocfilters==1.5.1
parameterized==0.9.0
parso @ file:///home/conda/feedstock_root/build_artifacts/parso_1712320355065/work
partd==1.4.2
pathos==0.3.2
pathspec==0.12.1
pathvalidate==3.2.3
patsy==1.0.1
pexpect @ file:///home/conda/feedstock_root/build_artifacts/pexpect_1706113125309/work
phik==0.12.4
pickleshare @ file:///home/conda/feedstock_root/build_artifacts/pickleshare_1602536217715/work
pillow==10.2.0
pkginfo @ file:///home/conda/feedstock_root/build_artifacts/pkginfo_1728616516923/work
pkgutil_resolve_name @ file:///home/conda/feedstock_root/build_artifacts/pkgutil-resolve-name_1694617248815/work
platformdirs @ file:///home/conda/feedstock_root/build_artifacts/platformdirs_1726613481435/work
plotly==5.24.1
pluggy @ file:///home/conda/feedstock_root/build_artifacts/pluggy_1713667077545/work
polars==1.19.0
pooch==1.8.2
portalocker==3.1.1
pox==0.3.5
ppft==1.7.6.9
pretrainedmodels==0.7.4
prometheus_client==0.21.1
prompt_toolkit @ file:///home/conda/feedstock_root/build_artifacts/prompt-toolkit_1727341649933/work
propcache==0.2.1
protobuf==5.29.3
psutil @ file:///home/conda/feedstock_root/build_artifacts/psutil_1729847065645/work
ptyprocess @ file:///home/conda/feedstock_root/build_artifacts/ptyprocess_1609419310487/work/dist/ptyprocess-0.7.0-py2.py3-none-any.whl
pure_eval @ file:///home/conda/feedstock_root/build_artifacts/pure_eval_1721585709575/work
pyarrow==18.1.0
pycocotools==2.0.8
pycosat @ file:///home/conda/feedstock_root/build_artifacts/pycosat_1696355758146/work
pycparser @ file:///home/conda/feedstock_root/build_artifacts/pycparser_1711811537435/work
pycuda==2024.1.2
pydantic==2.10.5
pydantic_core==2.27.2
pydicom==3.0.1
Pygments @ file:///home/conda/feedstock_root/build_artifacts/pygments_1714846767233/work
pylibjpeg==2.0.1
PyMySQL==1.1.1
pyparsing==3.2.1
PySocks @ file:///home/conda/feedstock_root/build_artifacts/pysocks_1661604839144/work
python-dateutil==2.9.0.post0
python-dotenv==1.0.1
python-etcd==0.4.5
python-gdcm==3.0.24.1
python-json-logger==3.2.1
python-multipart==0.0.20
pytools==2025.1.1
pytorch-ignite==0.5.1
pytorch-lightning==2.5.0.post0
pytorchvideo @ git+https://github.com/facebookresearch/pytorchvideo.git@ae9cfc6e62ca49eb9721a7a56e1e13e348ad21dc
pytz @ file:///home/conda/feedstock_root/build_artifacts/pytz_1726055524169/work
PyWavelets==1.8.0
PyYAML @ file:///home/conda/feedstock_root/build_artifacts/pyyaml_1725456139051/work
pyzmq==26.2.0
referencing @ file:///home/conda/feedstock_root/build_artifacts/referencing_1714619483868/work
regex==2024.11.6
requests @ file:///home/conda/feedstock_root/build_artifacts/requests_1717057054362/work
requests-toolbelt==1.0.0
rfc3339-validator==0.1.4
rfc3986-validator==0.1.1
rich==13.9.4
rich-argparse==1.6.0
rpds-py @ file:///home/conda/feedstock_root/build_artifacts/rpds-py_1725327039958/work
ruamel.yaml @ file:///home/conda/feedstock_root/build_artifacts/ruamel.yaml_1728764976564/work
ruamel.yaml.clib @ file:///home/conda/feedstock_root/build_artifacts/ruamel.yaml.clib_1728724459810/work
s3fs==2024.12.0
s3transfer==0.10.4
safetensors==0.5.2
scikit-image==0.25.0
scikit-learn==1.6.1
scikit-learn-extra==0.3.0
scikit-spatial==8.1.0
scipy==1.12.0
seaborn==0.13.2
Send2Trash==1.8.3
sentry-sdk==2.19.2
setproctitle==1.3.4
shap==0.46.0
shortuuid==1.0.13
simpervisor==1.0.0
simplejson==3.19.3
six @ file:///home/conda/feedstock_root/build_artifacts/six_1620240208055/work
slicer==0.0.8
smmap==5.0.2
sniffio==1.3.1
sortedcontainers==2.4.0
soundfile==0.13.0
soupsieve @ file:///home/conda/feedstock_root/build_artifacts/soupsieve_1693929250441/work
soxr==0.5.0.post1
SQLAlchemy==2.0.37
stack-data @ file:///home/conda/feedstock_root/build_artifacts/stack_data_1669632077133/work
starlette==0.41.3
statsmodels==0.14.4
strcase==1.0.0
sympy==1.13.1
tabulate==0.9.0
tblib==3.0.0
tenacity==9.0.0
tensorboard==2.18.0
tensorboard-data-server==0.7.2
tensorrt==10.1.0
tensorrt-cu12-bindings==10.7.0
tensorrt-cu12-libs==10.7.0
tensorrt_cu12==10.7.0
termcolor==2.5.0
terminado==0.18.1
threadpoolctl==3.5.0
tifffile==2025.1.10
timm @ git+https://github.com/rwightman/pytorch-image-models.git@47811bc05a2fdff2dedbbb8b8b3a4b9e8dba4bb3
tinycss2==1.4.0
tokenizers==0.21.0
tomli==2.0.1
toolz==1.0.0
torch==2.5.1+cu124
torch-geometric==2.6.1
torch-optimi==0.2.1
torch2trt==0.5.0
torchaudio==2.5.1+cu124
torchelastic==0.2.2
torchmetrics==1.6.1
torchvision==0.20.1+cu124
tornado==6.4.2
tqdm @ file:///home/conda/feedstock_root/build_artifacts/tqdm_1722737464726/work
traitlets @ file:///home/conda/feedstock_root/build_artifacts/traitlets_1713535121073/work
transformers==4.48.0
trimesh==4.5.3
triton==3.1.0
truststore @ file:///home/conda/feedstock_root/build_artifacts/truststore_1724770958874/work
typeguard==4.4.1
types-dataclasses==0.6.6
types-python-dateutil==2.9.0.20241206
typing_extensions @ file:///home/conda/feedstock_root/build_artifacts/typing_extensions_1717802530399/work
tzdata==2024.2
uri-template==1.3.0
urllib3 @ file:///home/conda/feedstock_root/build_artifacts/urllib3_1726496430923/work
uvicorn==0.34.0
uvloop==0.21.0
visions==0.7.6
wandb==0.19.2
wasmtime==28.0.0
watchfiles==1.0.4
wcwidth @ file:///home/conda/feedstock_root/build_artifacts/wcwidth_1704731205417/work
webcolors==24.11.1
webencodings==0.5.1
websocket-client==1.8.0
websockets==14.1
Werkzeug==3.1.3
widgetsnbextension==4.0.13
wordcloud==1.9.4
wrapt==1.17.1
xtcocotools==1.14.3
xxhash==3.5.0
yacs==0.1.8
yarl==1.18.3
ydata-profiling==4.12.1
zarr==2.18.4
zict==3.0.0
zipp @ file:///home/conda/feedstock_root/build_artifacts/zipp_1726248574750/work
zstandard==0.23.0