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[pre-commit.ci] auto fixes from pre-commit.com hooks
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src/scanpy/tools/_score_genes.py

Lines changed: 8 additions & 7 deletions
Original file line numberDiff line numberDiff line change
@@ -4,7 +4,6 @@
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from typing import TYPE_CHECKING
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7-
import math
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import numpy as np
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import pandas as pd
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@@ -32,20 +31,22 @@
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def _get_sparce_nanmean_columns(
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data: NDArray[Any], indices: NDArray[np.int32], shape: tuple
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) -> NDArray[np.float64]:
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sum_arr = np.zeros(shape[1], dtype = np.float64)
36-
nans_arr = np.zeros(shape[1], dtype = np.float64)
34+
sum_arr = np.zeros(shape[1], dtype=np.float64)
35+
nans_arr = np.zeros(shape[1], dtype=np.float64)
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np.add.at(sum_arr, indices, np.nan_to_num(data, nan=0.0))
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np.add.at(nans_arr, indices, np.isnan(data))
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nans_arr[nans_arr==shape[0]] = np.nan
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return sum_arr/(shape[0] - nans_arr)
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nans_arr[nans_arr == shape[0]] = np.nan
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return sum_arr / (shape[0] - nans_arr)
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def _get_sparce_nanmean_rows(
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data: NDArray[Any], indptr: NDArray[np.int32], shape: tuple
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) -> NDArray[np.float64]:
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sum_arr = np.add.reduceat(np.nan_to_num(data, nan=0.0), indptr[:-1], dtype=np.float64)
45+
sum_arr = np.add.reduceat(
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np.nan_to_num(data, nan=0.0), indptr[:-1], dtype=np.float64
47+
)
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nans_arr = np.add.reduceat(np.isnan(data), indptr[:-1], dtype=np.float64)
48-
return sum_arr/(shape[1] - nans_arr)
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return sum_arr / (shape[1] - nans_arr)
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def _sparse_nanmean(X: CSBase, axis: Literal[0, 1]) -> NDArray[np.float64]:

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