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191 lines
6.1 KiB
191 lines
6.1 KiB
"""
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Cython implementations for internal ExtensionArrays.
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"""
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cimport cython
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import numpy as np
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cimport numpy as cnp
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from cpython cimport PyErr_Clear
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from numpy cimport ndarray
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cnp.import_array()
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@cython.freelist(16)
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cdef class NDArrayBacked:
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"""
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Implementing these methods in cython improves performance quite a bit.
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import pandas as pd
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from pandas._libs.arrays import NDArrayBacked as cls
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dti = pd.date_range("2016-01-01", periods=3)
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dta = dti._data
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arr = dta._ndarray
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obj = cls._simple_new(arr, arr.dtype)
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# for foo in [arr, dta, obj]: ...
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%timeit foo.copy()
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299 ns ± 30 ns per loop # <-- arr underlying ndarray (for reference)
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530 ns ± 9.24 ns per loop # <-- dta with cython NDArrayBacked
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1.66 µs ± 46.3 ns per loop # <-- dta without cython NDArrayBacked
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328 ns ± 5.29 ns per loop # <-- obj with NDArrayBacked.__cinit__
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371 ns ± 6.97 ns per loop # <-- obj with NDArrayBacked._simple_new
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%timeit foo.T
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125 ns ± 6.27 ns per loop # <-- arr underlying ndarray (for reference)
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226 ns ± 7.66 ns per loop # <-- dta with cython NDArrayBacked
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911 ns ± 16.6 ns per loop # <-- dta without cython NDArrayBacked
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215 ns ± 4.54 ns per loop # <-- obj with NDArrayBacked._simple_new
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"""
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# TODO: implement take in terms of cnp.PyArray_TakeFrom
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# TODO: implement concat_same_type in terms of cnp.PyArray_Concatenate
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# cdef:
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# readonly ndarray _ndarray
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# readonly object _dtype
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def __init__(self, ndarray values, object dtype):
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self._ndarray = values
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self._dtype = dtype
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@classmethod
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def _simple_new(cls, ndarray values, object dtype):
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cdef:
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NDArrayBacked obj
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obj = NDArrayBacked.__new__(cls)
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obj._ndarray = values
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obj._dtype = dtype
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return obj
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cpdef NDArrayBacked _from_backing_data(self, ndarray values):
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"""
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Construct a new ExtensionArray `new_array` with `arr` as its _ndarray.
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This should round-trip:
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self == self._from_backing_data(self._ndarray)
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"""
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# TODO: re-reuse simple_new if/when it can be cpdef
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cdef:
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NDArrayBacked obj
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obj = NDArrayBacked.__new__(type(self))
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obj._ndarray = values
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obj._dtype = self._dtype
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return obj
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cpdef __setstate__(self, state):
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if isinstance(state, dict):
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if "_data" in state:
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data = state.pop("_data")
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elif "_ndarray" in state:
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data = state.pop("_ndarray")
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else:
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raise ValueError # pragma: no cover
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self._ndarray = data
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self._dtype = state.pop("_dtype")
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for key, val in state.items():
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setattr(self, key, val)
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elif isinstance(state, tuple):
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if len(state) != 3:
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if len(state) == 1 and isinstance(state[0], dict):
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self.__setstate__(state[0])
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return
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raise NotImplementedError(state) # pragma: no cover
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data, dtype = state[:2]
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if isinstance(dtype, np.ndarray):
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dtype, data = data, dtype
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self._ndarray = data
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self._dtype = dtype
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if isinstance(state[2], dict):
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for key, val in state[2].items():
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setattr(self, key, val)
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else:
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raise NotImplementedError(state) # pragma: no cover
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else:
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raise NotImplementedError(state) # pragma: no cover
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def __len__(self) -> int:
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return len(self._ndarray)
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@property
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def shape(self):
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# object cast bc _ndarray.shape is npy_intp*
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return (<object>(self._ndarray)).shape
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@property
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def ndim(self) -> int:
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return self._ndarray.ndim
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@property
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def size(self) -> int:
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# TODO(cython3): use self._ndarray.size
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return cnp.PyArray_SIZE(self._ndarray)
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@property
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def nbytes(self) -> int:
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return cnp.PyArray_NBYTES(self._ndarray)
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def copy(self, order="C"):
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cdef:
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cnp.NPY_ORDER order_code
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int success
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success = cnp.PyArray_OrderConverter(order, &order_code)
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if not success:
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# clear exception so that we don't get a SystemError
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PyErr_Clear()
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# same message used by numpy
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msg = f"order must be one of 'C', 'F', 'A', or 'K' (got '{order}')"
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raise ValueError(msg)
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res_values = cnp.PyArray_NewCopy(self._ndarray, order_code)
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return self._from_backing_data(res_values)
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def delete(self, loc, axis=0):
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res_values = np.delete(self._ndarray, loc, axis=axis)
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return self._from_backing_data(res_values)
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def swapaxes(self, axis1, axis2):
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res_values = cnp.PyArray_SwapAxes(self._ndarray, axis1, axis2)
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return self._from_backing_data(res_values)
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# TODO: pass NPY_MAXDIMS equiv to axis=None?
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def repeat(self, repeats, axis: int | np.integer = 0):
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if axis is None:
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axis = 0
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res_values = cnp.PyArray_Repeat(self._ndarray, repeats, <int>axis)
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return self._from_backing_data(res_values)
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def reshape(self, *args, **kwargs):
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res_values = self._ndarray.reshape(*args, **kwargs)
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return self._from_backing_data(res_values)
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def ravel(self, order="C"):
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# cnp.PyArray_OrderConverter(PyObject* obj, NPY_ORDER* order)
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# res_values = cnp.PyArray_Ravel(self._ndarray, order)
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res_values = self._ndarray.ravel(order)
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return self._from_backing_data(res_values)
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@property
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def T(self):
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res_values = self._ndarray.T
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return self._from_backing_data(res_values)
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def transpose(self, *axes):
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res_values = self._ndarray.transpose(*axes)
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return self._from_backing_data(res_values)
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@classmethod
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def _concat_same_type(cls, to_concat, axis=0):
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# NB: We are assuming at this point that dtypes all match
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new_values = [obj._ndarray for obj in to_concat]
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new_arr = cnp.PyArray_Concatenate(new_values, axis)
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return to_concat[0]._from_backing_data(new_arr)
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