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Loosen numpy/pandas/pydantic/scikit-learn/narwhals pins so Colab installs don't downgrade #1287

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Merged
jhnwu3 merged 1 commit into from
Oct 11, 2026
Merged

Loosen numpy/pandas/pydantic/scikit-learn/narwhals pins so Colab installs don't downgrade #1287

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12 changes: 7 additions & 5 deletions pyproject.toml
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Expand Up @@ -30,21 +30,23 @@ dependencies = [
"rdkit",
"ogb>=1.3.5",
"icd-mappings~=0.6.2",
"scikit-learn~=1.7.0",
# Lower bounds match or sit below Google Colab's preinstalled versions, so
# installing PyHealth there doesn't downgrade packages already imported.
"scikit-learn>=1.6,<2",
"networkx",
"mne~=1.10.0",
"numpy~=2.2.0",
"numpy>=2.1,<3",
"tqdm",
"polars~=1.35.2",
"pandas~=2.3.1",
"pydantic~=2.11.7",
"pandas>=2.2,<3",
"pydantic>=2.11,<3",
"dask[complete]>=2026.1.0",
# >=0.2.64: worker indexes merge in numeric rank order (patient_to_index relies
# on it). <0.2.68: 0.2.68+ reads SampleDataset.subset() parts ~10-35x slower.
"litdata>=0.2.64,<0.2.68",
"pyarrow>=23.0.1",
"orjson~=3.10",
"narwhals~=2.13.0",
"narwhals>=2.13,<3",
"more-itertools~=10.8.0",
"einops>=0.8.0",
"linear-attention-transformer>=0.19.1",
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