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Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/_numba/executor.py

@@ -0,0 +1,239 @@
+from __future__ import annotations
+
+import functools
+from typing import (
+    TYPE_CHECKING,
+    Any,
+    Callable,
+)
+
+if TYPE_CHECKING:
+    from pandas._typing import Scalar
+
+import numpy as np
+
+from pandas.compat._optional import import_optional_dependency
+
+
+@functools.cache
+def generate_apply_looper(func, nopython=True, nogil=True, parallel=False):
+    if TYPE_CHECKING:
+        import numba
+    else:
+        numba = import_optional_dependency("numba")
+    nb_compat_func = numba.extending.register_jitable(func)
+
+    @numba.jit(nopython=nopython, nogil=nogil, parallel=parallel)
+    def nb_looper(values, axis):
+        # Operate on the first row/col in order to get
+        # the output shape
+        if axis == 0:
+            first_elem = values[:, 0]
+            dim0 = values.shape[1]
+        else:
+            first_elem = values[0]
+            dim0 = values.shape[0]
+        res0 = nb_compat_func(first_elem)
+        # Use np.asarray to get shape for
+        # https://github.com/numba/numba/issues/4202#issuecomment-1185981507
+        buf_shape = (dim0,) + np.atleast_1d(np.asarray(res0)).shape
+        if axis == 0:
+            buf_shape = buf_shape[::-1]
+        buff = np.empty(buf_shape)
+
+        if axis == 1:
+            buff[0] = res0
+            for i in numba.prange(1, values.shape[0]):
+                buff[i] = nb_compat_func(values[i])
+        else:
+            buff[:, 0] = res0
+            for j in numba.prange(1, values.shape[1]):
+                buff[:, j] = nb_compat_func(values[:, j])
+        return buff
+
+    return nb_looper
+
+
+@functools.cache
+def make_looper(func, result_dtype, is_grouped_kernel, nopython, nogil, parallel):
+    if TYPE_CHECKING:
+        import numba
+    else:
+        numba = import_optional_dependency("numba")
+
+    if is_grouped_kernel:
+
+        @numba.jit(nopython=nopython, nogil=nogil, parallel=parallel)
+        def column_looper(
+            values: np.ndarray,
+            labels: np.ndarray,
+            ngroups: int,
+            min_periods: int,
+            *args,
+        ):
+            result = np.empty((values.shape[0], ngroups), dtype=result_dtype)
+            na_positions = {}
+            for i in numba.prange(values.shape[0]):
+                output, na_pos = func(
+                    values[i], result_dtype, labels, ngroups, min_periods, *args
+                )
+                result[i] = output
+                if len(na_pos) > 0:
+                    na_positions[i] = np.array(na_pos)
+            return result, na_positions
+
+    else:
+
+        @numba.jit(nopython=nopython, nogil=nogil, parallel=parallel)
+        def column_looper(
+            values: np.ndarray,
+            start: np.ndarray,
+            end: np.ndarray,
+            min_periods: int,
+            *args,
+        ):
+            result = np.empty((values.shape[0], len(start)), dtype=result_dtype)
+            na_positions = {}
+            for i in numba.prange(values.shape[0]):
+                output, na_pos = func(
+                    values[i], result_dtype, start, end, min_periods, *args
+                )
+                result[i] = output
+                if len(na_pos) > 0:
+                    na_positions[i] = np.array(na_pos)
+            return result, na_positions
+
+    return column_looper
+
+
+default_dtype_mapping: dict[np.dtype, Any] = {
+    np.dtype("int8"): np.int64,
+    np.dtype("int16"): np.int64,
+    np.dtype("int32"): np.int64,
+    np.dtype("int64"): np.int64,
+    np.dtype("uint8"): np.uint64,
+    np.dtype("uint16"): np.uint64,
+    np.dtype("uint32"): np.uint64,
+    np.dtype("uint64"): np.uint64,
+    np.dtype("float32"): np.float64,
+    np.dtype("float64"): np.float64,
+    np.dtype("complex64"): np.complex128,
+    np.dtype("complex128"): np.complex128,
+}
+
+
+# TODO: Preserve complex dtypes
+
+float_dtype_mapping: dict[np.dtype, Any] = {
+    np.dtype("int8"): np.float64,
+    np.dtype("int16"): np.float64,
+    np.dtype("int32"): np.float64,
+    np.dtype("int64"): np.float64,
+    np.dtype("uint8"): np.float64,
+    np.dtype("uint16"): np.float64,
+    np.dtype("uint32"): np.float64,
+    np.dtype("uint64"): np.float64,
+    np.dtype("float32"): np.float64,
+    np.dtype("float64"): np.float64,
+    np.dtype("complex64"): np.float64,
+    np.dtype("complex128"): np.float64,
+}
+
+identity_dtype_mapping: dict[np.dtype, Any] = {
+    np.dtype("int8"): np.int8,
+    np.dtype("int16"): np.int16,
+    np.dtype("int32"): np.int32,
+    np.dtype("int64"): np.int64,
+    np.dtype("uint8"): np.uint8,
+    np.dtype("uint16"): np.uint16,
+    np.dtype("uint32"): np.uint32,
+    np.dtype("uint64"): np.uint64,
+    np.dtype("float32"): np.float32,
+    np.dtype("float64"): np.float64,
+    np.dtype("complex64"): np.complex64,
+    np.dtype("complex128"): np.complex128,
+}
+
+
+def generate_shared_aggregator(
+    func: Callable[..., Scalar],
+    dtype_mapping: dict[np.dtype, np.dtype],
+    is_grouped_kernel: bool,
+    nopython: bool,
+    nogil: bool,
+    parallel: bool,
+):
+    """
+    Generate a Numba function that loops over the columns 2D object and applies
+    a 1D numba kernel over each column.
+
+    Parameters
+    ----------
+    func : function
+        aggregation function to be applied to each column
+    dtype_mapping: dict or None
+        If not None, maps a dtype to a result dtype.
+        Otherwise, will fall back to default mapping.
+    is_grouped_kernel: bool, default False
+        Whether func operates using the group labels (True)
+        or using starts/ends arrays
+
+        If true, you also need to pass the number of groups to this function
+    nopython : bool
+        nopython to be passed into numba.jit
+    nogil : bool
+        nogil to be passed into numba.jit
+    parallel : bool
+        parallel to be passed into numba.jit
+
+    Returns
+    -------
+    Numba function
+    """
+
+    # A wrapper around the looper function,
+    # to dispatch based on dtype since numba is unable to do that in nopython mode
+
+    # It also post-processes the values by inserting nans where number of observations
+    # is less than min_periods
+    # Cannot do this in numba nopython mode
+    # (you'll run into type-unification error when you cast int -> float)
+    def looper_wrapper(
+        values,
+        start=None,
+        end=None,
+        labels=None,
+        ngroups=None,
+        min_periods: int = 0,
+        **kwargs,
+    ):
+        result_dtype = dtype_mapping[values.dtype]
+        column_looper = make_looper(
+            func, result_dtype, is_grouped_kernel, nopython, nogil, parallel
+        )
+        # Need to unpack kwargs since numba only supports *args
+        if is_grouped_kernel:
+            result, na_positions = column_looper(
+                values, labels, ngroups, min_periods, *kwargs.values()
+            )
+        else:
+            result, na_positions = column_looper(
+                values, start, end, min_periods, *kwargs.values()
+            )
+        if result.dtype.kind == "i":
+            # Look if na_positions is not empty
+            # If so, convert the whole block
+            # This is OK since int dtype cannot hold nan,
+            # so if min_periods not satisfied for 1 col, it is not satisfied for
+            # all columns at that index
+            for na_pos in na_positions.values():
+                if len(na_pos) > 0:
+                    result = result.astype("float64")
+                    break
+        # TODO: Optimize this
+        for i, na_pos in na_positions.items():
+            if len(na_pos) > 0:
+                result[i, na_pos] = np.nan
+        return result
+
+    return looper_wrapper

Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/_numba/extensions.py

@@ -0,0 +1,585 @@
+# Disable type checking for this module since numba's internals
+# are not typed, and we use numba's internals via its extension API
+# mypy: ignore-errors
+"""
+Utility classes/functions to let numba recognize
+pandas Index/Series/DataFrame
+
+Mostly vendored from https://github.com/numba/numba/blob/main/numba/tests/pdlike_usecase.py
+"""
+
+from __future__ import annotations
+
+from contextlib import contextmanager
+import operator
+
+import numba
+from numba import types
+from numba.core import cgutils
+from numba.core.datamodel import models
+from numba.core.extending import (
+    NativeValue,
+    box,
+    lower_builtin,
+    make_attribute_wrapper,
+    overload,
+    overload_attribute,
+    overload_method,
+    register_model,
+    type_callable,
+    typeof_impl,
+    unbox,
+)
+from numba.core.imputils import impl_ret_borrowed
+import numpy as np
+
+from pandas._libs import lib
+
+from pandas.core.indexes.base import Index
+from pandas.core.indexing import _iLocIndexer
+from pandas.core.internals import SingleBlockManager
+from pandas.core.series import Series
+
+
+# Helper function to hack around fact that Index casts numpy string dtype to object
+#
+# Idea is to set an attribute on a Index called _numba_data
+# that is the original data, or the object data casted to numpy string dtype,
+# with a context manager that is unset afterwards
+@contextmanager
+def set_numba_data(index: Index):
+    numba_data = index._data
+    if numba_data.dtype in (object, "string"):
+        numba_data = np.asarray(numba_data)
+        if not lib.is_string_array(numba_data):
+            raise ValueError(
+                "The numba engine only supports using string or numeric column names"
+            )
+        numba_data = numba_data.astype("U")
+    try:
+        index._numba_data = numba_data
+        yield index
+    finally:
+        del index._numba_data
+
+
+# TODO: Range index support
+# (this currently lowers OK, but does not round-trip)
+class IndexType(types.Type):
+    """
+    The type class for Index objects.
+    """
+
+    def __init__(self, dtype, layout, pyclass: any) -> None:
+        self.pyclass = pyclass
+        name = f"index({dtype}, {layout})"
+        self.dtype = dtype
+        self.layout = layout
+        super().__init__(name)
+
+    @property
+    def key(self):
+        return self.pyclass, self.dtype, self.layout
+
+    @property
+    def as_array(self):
+        return types.Array(self.dtype, 1, self.layout)
+
+    def copy(self, dtype=None, ndim: int = 1, layout=None):
+        assert ndim == 1
+        if dtype is None:
+            dtype = self.dtype
+        layout = layout or self.layout
+        return type(self)(dtype, layout, self.pyclass)
+
+
+class SeriesType(types.Type):
+    """
+    The type class for Series objects.
+    """
+
+    def __init__(self, dtype, index, namety) -> None:
+        assert isinstance(index, IndexType)
+        self.dtype = dtype
+        self.index = index
+        self.values = types.Array(self.dtype, 1, "C")
+        self.namety = namety
+        name = f"series({dtype}, {index}, {namety})"
+        super().__init__(name)
+
+    @property
+    def key(self):
+        return self.dtype, self.index, self.namety
+
+    @property
+    def as_array(self):
+        return self.values
+
+    def copy(self, dtype=None, ndim: int = 1, layout: str = "C"):
+        assert ndim == 1
+        assert layout == "C"
+        if dtype is None:
+            dtype = self.dtype
+        return type(self)(dtype, self.index, self.namety)
+
+
+@typeof_impl.register(Index)
+def typeof_index(val, c):
+    """
+    This will assume that only strings are in object dtype
+    index.
+    (you should check this before this gets lowered down to numba)
+    """
+    # arrty = typeof_impl(val._data, c)
+    arrty = typeof_impl(val._numba_data, c)
+    assert arrty.ndim == 1
+    return IndexType(arrty.dtype, arrty.layout, type(val))
+
+
+@typeof_impl.register(Series)
+def typeof_series(val, c):
+    index = typeof_impl(val.index, c)
+    arrty = typeof_impl(val.values, c)
+    namety = typeof_impl(val.name, c)
+    assert arrty.ndim == 1
+    assert arrty.layout == "C"
+    return SeriesType(arrty.dtype, index, namety)
+
+
+@type_callable(Series)
+def type_series_constructor(context):
+    def typer(data, index, name=None):
+        if isinstance(index, IndexType) and isinstance(data, types.Array):
+            assert data.ndim == 1
+            if name is None:
+                name = types.intp
+            return SeriesType(data.dtype, index, name)
+
+    return typer
+
+
+@type_callable(Index)
+def type_index_constructor(context):
+    def typer(data, hashmap=None):
+        if isinstance(data, types.Array):
+            assert data.layout == "C"
+            assert data.ndim == 1
+            assert hashmap is None or isinstance(hashmap, types.DictType)
+            return IndexType(data.dtype, layout=data.layout, pyclass=Index)
+
+    return typer
+
+
+# Backend extensions for Index and Series and Frame
+@register_model(IndexType)
+class IndexModel(models.StructModel):
+    def __init__(self, dmm, fe_type) -> None:
+        # We don't want the numpy string scalar type in our hashmap
+        members = [
+            ("data", fe_type.as_array),
+            # This is an attempt to emulate our hashtable code with a numba
+            # typed dict
+            # It maps from values in the index to their integer positions in the array
+            ("hashmap", types.DictType(fe_type.dtype, types.intp)),
+            # Pointer to the Index object this was created from, or that it
+            # boxes to
+            # https://numba.discourse.group/t/qst-how-to-cache-the-boxing-of-an-object/2128/2?u=lithomas1
+            ("parent", types.pyobject),
+        ]
+        models.StructModel.__init__(self, dmm, fe_type, members)
+
+
+@register_model(SeriesType)
+class SeriesModel(models.StructModel):
+    def __init__(self, dmm, fe_type) -> None:
+        members = [
+            ("index", fe_type.index),
+            ("values", fe_type.as_array),
+            ("name", fe_type.namety),
+        ]
+        models.StructModel.__init__(self, dmm, fe_type, members)
+
+
+make_attribute_wrapper(IndexType, "data", "_data")
+make_attribute_wrapper(IndexType, "hashmap", "hashmap")
+
+make_attribute_wrapper(SeriesType, "index", "index")
+make_attribute_wrapper(SeriesType, "values", "values")
+make_attribute_wrapper(SeriesType, "name", "name")
+
+
+@lower_builtin(Series, types.Array, IndexType)
+def pdseries_constructor(context, builder, sig, args):
+    data, index = args
+    series = cgutils.create_struct_proxy(sig.return_type)(context, builder)
+    series.index = index
+    series.values = data
+    series.name = context.get_constant(types.intp, 0)
+    return impl_ret_borrowed(context, builder, sig.return_type, series._getvalue())
+
+
+@lower_builtin(Series, types.Array, IndexType, types.intp)
+@lower_builtin(Series, types.Array, IndexType, types.float64)
+@lower_builtin(Series, types.Array, IndexType, types.unicode_type)
+def pdseries_constructor_with_name(context, builder, sig, args):
+    data, index, name = args
+    series = cgutils.create_struct_proxy(sig.return_type)(context, builder)
+    series.index = index
+    series.values = data
+    series.name = name
+    return impl_ret_borrowed(context, builder, sig.return_type, series._getvalue())
+
+
+@lower_builtin(Index, types.Array, types.DictType, types.pyobject)
+def index_constructor_2arg(context, builder, sig, args):
+    (data, hashmap, parent) = args
+    index = cgutils.create_struct_proxy(sig.return_type)(context, builder)
+
+    index.data = data
+    index.hashmap = hashmap
+    index.parent = parent
+    return impl_ret_borrowed(context, builder, sig.return_type, index._getvalue())
+
+
+@lower_builtin(Index, types.Array, types.DictType)
+def index_constructor_2arg_parent(context, builder, sig, args):
+    # Basically same as index_constructor_1arg, but also lets you specify the
+    # parent object
+    (data, hashmap) = args
+    index = cgutils.create_struct_proxy(sig.return_type)(context, builder)
+
+    index.data = data
+    index.hashmap = hashmap
+    return impl_ret_borrowed(context, builder, sig.return_type, index._getvalue())
+
+
+@lower_builtin(Index, types.Array)
+def index_constructor_1arg(context, builder, sig, args):
+    from numba.typed import Dict
+
+    key_type = sig.return_type.dtype
+    value_type = types.intp
+
+    def index_impl(data):
+        return Index(data, Dict.empty(key_type, value_type))
+
+    return context.compile_internal(builder, index_impl, sig, args)
+
+
+# Helper to convert the unicodecharseq (numpy string scalar) into a unicode_type
+# (regular string)
+def maybe_cast_str(x):
+    # Dummy function that numba can overload
+    pass
+
+
+@overload(maybe_cast_str)
+def maybe_cast_str_impl(x):
+    """Converts numba UnicodeCharSeq (numpy string scalar) -> unicode type (string).
+    Is a no-op for other types."""
+    if isinstance(x, types.UnicodeCharSeq):
+        return lambda x: str(x)
+    else:
+        return lambda x: x
+
+
+@unbox(IndexType)
+def unbox_index(typ, obj, c):
+    """
+    Convert a Index object to a native structure.
+
+    Note: Object dtype is not allowed here
+    """
+    data_obj = c.pyapi.object_getattr_string(obj, "_numba_data")
+    index = cgutils.create_struct_proxy(typ)(c.context, c.builder)
+    # If we see an object array, assume its been validated as only containing strings
+    # We still need to do the conversion though
+    index.data = c.unbox(typ.as_array, data_obj).value
+    typed_dict_obj = c.pyapi.unserialize(c.pyapi.serialize_object(numba.typed.Dict))
+    # Create an empty typed dict in numba for the hashmap for indexing
+    # equiv of numba.typed.Dict.empty(typ.dtype, types.intp)
+    arr_type_obj = c.pyapi.unserialize(c.pyapi.serialize_object(typ.dtype))
+    intp_type_obj = c.pyapi.unserialize(c.pyapi.serialize_object(types.intp))
+    hashmap_obj = c.pyapi.call_method(
+        typed_dict_obj, "empty", (arr_type_obj, intp_type_obj)
+    )
+    index.hashmap = c.unbox(types.DictType(typ.dtype, types.intp), hashmap_obj).value
+    # Set the parent for speedy boxing.
+    index.parent = obj
+
+    # Decrefs
+    c.pyapi.decref(data_obj)
+    c.pyapi.decref(arr_type_obj)
+    c.pyapi.decref(intp_type_obj)
+    c.pyapi.decref(typed_dict_obj)
+
+    return NativeValue(index._getvalue())
+
+
+@unbox(SeriesType)
+def unbox_series(typ, obj, c):
+    """
+    Convert a Series object to a native structure.
+    """
+    index_obj = c.pyapi.object_getattr_string(obj, "index")
+    values_obj = c.pyapi.object_getattr_string(obj, "values")
+    name_obj = c.pyapi.object_getattr_string(obj, "name")
+
+    series = cgutils.create_struct_proxy(typ)(c.context, c.builder)
+    series.index = c.unbox(typ.index, index_obj).value
+    series.values = c.unbox(typ.values, values_obj).value
+    series.name = c.unbox(typ.namety, name_obj).value
+
+    # Decrefs
+    c.pyapi.decref(index_obj)
+    c.pyapi.decref(values_obj)
+    c.pyapi.decref(name_obj)
+
+    return NativeValue(series._getvalue())
+
+
+@box(IndexType)
+def box_index(typ, val, c):
+    """
+    Convert a native index structure to a Index object.
+
+    If our native index is of a numpy string dtype, we'll cast it to
+    object.
+    """
+    # First build a Numpy array object, then wrap it in a Index
+    index = cgutils.create_struct_proxy(typ)(c.context, c.builder, value=val)
+
+    res = cgutils.alloca_once_value(c.builder, index.parent)
+
+    # Does parent exist?
+    # (it means already boxed once, or Index same as original df.index or df.columns)
+    # xref https://github.com/numba/numba/blob/596e8a55334cc46854e3192766e643767bd7c934/numba/core/boxing.py#L593C17-L593C17
+    with c.builder.if_else(cgutils.is_not_null(c.builder, index.parent)) as (
+        has_parent,
+        otherwise,
+    ):
+        with has_parent:
+            c.pyapi.incref(index.parent)
+        with otherwise:
+            # TODO: preserve the original class for the index
+            # Also need preserve the name of the Index
+            # class_obj = c.pyapi.unserialize(c.pyapi.serialize_object(typ.pyclass))
+            class_obj = c.pyapi.unserialize(c.pyapi.serialize_object(Index))
+            array_obj = c.box(typ.as_array, index.data)
+            if isinstance(typ.dtype, types.UnicodeCharSeq):
+                # We converted to numpy string dtype, convert back
+                # to object since _simple_new won't do that for uss
+                object_str_obj = c.pyapi.unserialize(c.pyapi.serialize_object("object"))
+                array_obj = c.pyapi.call_method(array_obj, "astype", (object_str_obj,))
+                c.pyapi.decref(object_str_obj)
+            # this is basically Index._simple_new(array_obj, name_obj) in python
+            index_obj = c.pyapi.call_method(class_obj, "_simple_new", (array_obj,))
+            index.parent = index_obj
+            c.builder.store(index_obj, res)
+
+            # Decrefs
+            c.pyapi.decref(class_obj)
+            c.pyapi.decref(array_obj)
+    return c.builder.load(res)
+
+
+@box(SeriesType)
+def box_series(typ, val, c):
+    """
+    Convert a native series structure to a Series object.
+    """
+    series = cgutils.create_struct_proxy(typ)(c.context, c.builder, value=val)
+    series_const_obj = c.pyapi.unserialize(c.pyapi.serialize_object(Series._from_mgr))
+    mgr_const_obj = c.pyapi.unserialize(
+        c.pyapi.serialize_object(SingleBlockManager.from_array)
+    )
+    index_obj = c.box(typ.index, series.index)
+    array_obj = c.box(typ.as_array, series.values)
+    name_obj = c.box(typ.namety, series.name)
+    # This is basically equivalent of
+    # pd.Series(data=array_obj, index=index_obj)
+    # To improve perf, we will construct the Series from a manager
+    # object to avoid checks.
+    # We'll also set the name attribute manually to avoid validation
+    mgr_obj = c.pyapi.call_function_objargs(
+        mgr_const_obj,
+        (
+            array_obj,
+            index_obj,
+        ),
+    )
+    mgr_axes_obj = c.pyapi.object_getattr_string(mgr_obj, "axes")
+    # Series._constructor_from_mgr(mgr, axes)
+    series_obj = c.pyapi.call_function_objargs(
+        series_const_obj, (mgr_obj, mgr_axes_obj)
+    )
+    c.pyapi.object_setattr_string(series_obj, "_name", name_obj)
+
+    # Decrefs
+    c.pyapi.decref(series_const_obj)
+    c.pyapi.decref(mgr_axes_obj)
+    c.pyapi.decref(mgr_obj)
+    c.pyapi.decref(mgr_const_obj)
+    c.pyapi.decref(index_obj)
+    c.pyapi.decref(array_obj)
+    c.pyapi.decref(name_obj)
+
+    return series_obj
+
+
+# Add common series reductions (e.g. mean, sum),
+# and also add common binops (e.g. add, sub, mul, div)
+def generate_series_reduction(ser_reduction, ser_method):
+    @overload_method(SeriesType, ser_reduction)
+    def series_reduction(series):
+        def series_reduction_impl(series):
+            return ser_method(series.values)
+
+        return series_reduction_impl
+
+    return series_reduction
+
+
+def generate_series_binop(binop):
+    @overload(binop)
+    def series_binop(series1, value):
+        if isinstance(series1, SeriesType):
+            if isinstance(value, SeriesType):
+
+                def series_binop_impl(series1, series2):
+                    # TODO: Check index matching?
+                    return Series(
+                        binop(series1.values, series2.values),
+                        series1.index,
+                        series1.name,
+                    )
+
+                return series_binop_impl
+            else:
+
+                def series_binop_impl(series1, value):
+                    return Series(
+                        binop(series1.values, value), series1.index, series1.name
+                    )
+
+                return series_binop_impl
+
+    return series_binop
+
+
+series_reductions = [
+    ("sum", np.sum),
+    ("mean", np.mean),
+    # Disabled due to discrepancies between numba std. dev
+    # and pandas std. dev (no way to specify dof)
+    # ("std", np.std),
+    # ("var", np.var),
+    ("min", np.min),
+    ("max", np.max),
+]
+for reduction, reduction_method in series_reductions:
+    generate_series_reduction(reduction, reduction_method)
+
+series_binops = [operator.add, operator.sub, operator.mul, operator.truediv]
+
+for ser_binop in series_binops:
+    generate_series_binop(ser_binop)
+
+
+# get_loc on Index
+@overload_method(IndexType, "get_loc")
+def index_get_loc(index, item):
+    def index_get_loc_impl(index, item):
+        # Initialize the hash table if not initialized
+        if len(index.hashmap) == 0:
+            for i, val in enumerate(index._data):
+                index.hashmap[val] = i
+        return index.hashmap[item]
+
+    return index_get_loc_impl
+
+
+# Indexing for Series/Index
+@overload(operator.getitem)
+def series_indexing(series, item):
+    if isinstance(series, SeriesType):
+
+        def series_getitem(series, item):
+            loc = series.index.get_loc(item)
+            return series.iloc[loc]
+
+        return series_getitem
+
+
+@overload(operator.getitem)
+def index_indexing(index, idx):
+    if isinstance(index, IndexType):
+
+        def index_getitem(index, idx):
+            return index._data[idx]
+
+        return index_getitem
+
+
+class IlocType(types.Type):
+    def __init__(self, obj_type) -> None:
+        self.obj_type = obj_type
+        name = f"iLocIndexer({obj_type})"
+        super().__init__(name=name)
+
+    @property
+    def key(self):
+        return self.obj_type
+
+
+@typeof_impl.register(_iLocIndexer)
+def typeof_iloc(val, c):
+    objtype = typeof_impl(val.obj, c)
+    return IlocType(objtype)
+
+
+@type_callable(_iLocIndexer)
+def type_iloc_constructor(context):
+    def typer(obj):
+        if isinstance(obj, SeriesType):
+            return IlocType(obj)
+
+    return typer
+
+
+@lower_builtin(_iLocIndexer, SeriesType)
+def iloc_constructor(context, builder, sig, args):
+    (obj,) = args
+    iloc_indexer = cgutils.create_struct_proxy(sig.return_type)(context, builder)
+    iloc_indexer.obj = obj
+    return impl_ret_borrowed(
+        context, builder, sig.return_type, iloc_indexer._getvalue()
+    )
+
+
+@register_model(IlocType)
+class ILocModel(models.StructModel):
+    def __init__(self, dmm, fe_type) -> None:
+        members = [("obj", fe_type.obj_type)]
+        models.StructModel.__init__(self, dmm, fe_type, members)
+
+
+make_attribute_wrapper(IlocType, "obj", "obj")
+
+
+@overload_attribute(SeriesType, "iloc")
+def series_iloc(series):
+    def get(series):
+        return _iLocIndexer(series)
+
+    return get
+
+
+@overload(operator.getitem)
+def iloc_getitem(iloc_indexer, i):
+    if isinstance(iloc_indexer, IlocType):
+
+        def getitem_impl(iloc_indexer, i):
+            return iloc_indexer.obj.values[i]
+
+        return getitem_impl

Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/_numba/kernels/__init__.py

@@ -0,0 +1,27 @@
+from pandas.core._numba.kernels.mean_ import (
+    grouped_mean,
+    sliding_mean,
+)
+from pandas.core._numba.kernels.min_max_ import (
+    grouped_min_max,
+    sliding_min_max,
+)
+from pandas.core._numba.kernels.sum_ import (
+    grouped_sum,
+    sliding_sum,
+)
+from pandas.core._numba.kernels.var_ import (
+    grouped_var,
+    sliding_var,
+)
+
+__all__ = [
+    "sliding_mean",
+    "grouped_mean",
+    "sliding_sum",
+    "grouped_sum",
+    "sliding_var",
+    "grouped_var",
+    "sliding_min_max",
+    "grouped_min_max",
+]

Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/_numba/kernels/mean_.py

@@ -0,0 +1,196 @@
+"""
+Numba 1D mean kernels that can be shared by
+* Dataframe / Series
+* groupby
+* rolling / expanding
+
+Mirrors pandas/_libs/window/aggregation.pyx
+"""
+from __future__ import annotations
+
+from typing import TYPE_CHECKING
+
+import numba
+import numpy as np
+
+from pandas.core._numba.kernels.shared import is_monotonic_increasing
+from pandas.core._numba.kernels.sum_ import grouped_kahan_sum
+
+if TYPE_CHECKING:
+    from pandas._typing import npt
+
+
+@numba.jit(nopython=True, nogil=True, parallel=False)
+def add_mean(
+    val: float,
+    nobs: int,
+    sum_x: float,
+    neg_ct: int,
+    compensation: float,
+    num_consecutive_same_value: int,
+    prev_value: float,
+) -> tuple[int, float, int, float, int, float]:
+    if not np.isnan(val):
+        nobs += 1
+        y = val - compensation
+        t = sum_x + y
+        compensation = t - sum_x - y
+        sum_x = t
+        if val < 0:
+            neg_ct += 1
+
+        if val == prev_value:
+            num_consecutive_same_value += 1
+        else:
+            num_consecutive_same_value = 1
+        prev_value = val
+
+    return nobs, sum_x, neg_ct, compensation, num_consecutive_same_value, prev_value
+
+
+@numba.jit(nopython=True, nogil=True, parallel=False)
+def remove_mean(
+    val: float, nobs: int, sum_x: float, neg_ct: int, compensation: float
+) -> tuple[int, float, int, float]:
+    if not np.isnan(val):
+        nobs -= 1
+        y = -val - compensation
+        t = sum_x + y
+        compensation = t - sum_x - y
+        sum_x = t
+        if val < 0:
+            neg_ct -= 1
+    return nobs, sum_x, neg_ct, compensation
+
+
+@numba.jit(nopython=True, nogil=True, parallel=False)
+def sliding_mean(
+    values: np.ndarray,
+    result_dtype: np.dtype,
+    start: np.ndarray,
+    end: np.ndarray,
+    min_periods: int,
+) -> tuple[np.ndarray, list[int]]:
+    N = len(start)
+    nobs = 0
+    sum_x = 0.0
+    neg_ct = 0
+    compensation_add = 0.0
+    compensation_remove = 0.0
+
+    is_monotonic_increasing_bounds = is_monotonic_increasing(
+        start
+    ) and is_monotonic_increasing(end)
+
+    output = np.empty(N, dtype=result_dtype)
+
+    for i in range(N):
+        s = start[i]
+        e = end[i]
+        if i == 0 or not is_monotonic_increasing_bounds:
+            prev_value = values[s]
+            num_consecutive_same_value = 0
+
+            for j in range(s, e):
+                val = values[j]
+                (
+                    nobs,
+                    sum_x,
+                    neg_ct,
+                    compensation_add,
+                    num_consecutive_same_value,
+                    prev_value,
+                ) = add_mean(
+                    val,
+                    nobs,
+                    sum_x,
+                    neg_ct,
+                    compensation_add,
+                    num_consecutive_same_value,
+                    prev_value,  # pyright: ignore[reportGeneralTypeIssues]
+                )
+        else:
+            for j in range(start[i - 1], s):
+                val = values[j]
+                nobs, sum_x, neg_ct, compensation_remove = remove_mean(
+                    val, nobs, sum_x, neg_ct, compensation_remove
+                )
+
+            for j in range(end[i - 1], e):
+                val = values[j]
+                (
+                    nobs,
+                    sum_x,
+                    neg_ct,
+                    compensation_add,
+                    num_consecutive_same_value,
+                    prev_value,
+                ) = add_mean(
+                    val,
+                    nobs,
+                    sum_x,
+                    neg_ct,
+                    compensation_add,
+                    num_consecutive_same_value,
+                    prev_value,  # pyright: ignore[reportGeneralTypeIssues]
+                )
+
+        if nobs >= min_periods and nobs > 0:
+            result = sum_x / nobs
+            if num_consecutive_same_value >= nobs:
+                result = prev_value
+            elif neg_ct == 0 and result < 0:
+                result = 0
+            elif neg_ct == nobs and result > 0:
+                result = 0
+        else:
+            result = np.nan
+
+        output[i] = result
+
+        if not is_monotonic_increasing_bounds:
+            nobs = 0
+            sum_x = 0.0
+            neg_ct = 0
+            compensation_remove = 0.0
+
+    # na_position is empty list since float64 can already hold nans
+    # Do list comprehension, since numba cannot figure out that na_pos is
+    # empty list of ints on its own
+    na_pos = [0 for i in range(0)]
+    return output, na_pos
+
+
+@numba.jit(nopython=True, nogil=True, parallel=False)
+def grouped_mean(
+    values: np.ndarray,
+    result_dtype: np.dtype,
+    labels: npt.NDArray[np.intp],
+    ngroups: int,
+    min_periods: int,
+) -> tuple[np.ndarray, list[int]]:
+    output, nobs_arr, comp_arr, consecutive_counts, prev_vals = grouped_kahan_sum(
+        values, result_dtype, labels, ngroups
+    )
+
+    # Post-processing, replace sums that don't satisfy min_periods
+    for lab in range(ngroups):
+        nobs = nobs_arr[lab]
+        num_consecutive_same_value = consecutive_counts[lab]
+        prev_value = prev_vals[lab]
+        sum_x = output[lab]
+        if nobs >= min_periods:
+            if num_consecutive_same_value >= nobs:
+                result = prev_value * nobs
+            else:
+                result = sum_x
+        else:
+            result = np.nan
+        result /= nobs
+        output[lab] = result
+
+    # na_position is empty list since float64 can already hold nans
+    # Do list comprehension, since numba cannot figure out that na_pos is
+    # empty list of ints on its own
+    na_pos = [0 for i in range(0)]
+    return output, na_pos

Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/_numba/kernels/min_max_.py

@@ -0,0 +1,125 @@
+"""
+Numba 1D min/max kernels that can be shared by
+* Dataframe / Series
+* groupby
+* rolling / expanding
+
+Mirrors pandas/_libs/window/aggregation.pyx
+"""
+from __future__ import annotations
+
+from typing import TYPE_CHECKING
+
+import numba
+import numpy as np
+
+if TYPE_CHECKING:
+    from pandas._typing import npt
+
+
+@numba.jit(nopython=True, nogil=True, parallel=False)
+def sliding_min_max(
+    values: np.ndarray,
+    result_dtype: np.dtype,
+    start: np.ndarray,
+    end: np.ndarray,
+    min_periods: int,
+    is_max: bool,
+) -> tuple[np.ndarray, list[int]]:
+    N = len(start)
+    nobs = 0
+    output = np.empty(N, dtype=result_dtype)
+    na_pos = []
+    # Use deque once numba supports it
+    # https://github.com/numba/numba/issues/7417
+    Q: list = []
+    W: list = []
+    for i in range(N):
+        curr_win_size = end[i] - start[i]
+        if i == 0:
+            st = start[i]
+        else:
+            st = end[i - 1]
+
+        for k in range(st, end[i]):
+            ai = values[k]
+            if not np.isnan(ai):
+                nobs += 1
+            elif is_max:
+                ai = -np.inf
+            else:
+                ai = np.inf
+            # Discard previous entries if we find new min or max
+            if is_max:
+                while Q and ((ai >= values[Q[-1]]) or values[Q[-1]] != values[Q[-1]]):
+                    Q.pop()
+            else:
+                while Q and ((ai <= values[Q[-1]]) or values[Q[-1]] != values[Q[-1]]):
+                    Q.pop()
+            Q.append(k)
+            W.append(k)
+
+        # Discard entries outside and left of current window
+        while Q and Q[0] <= start[i] - 1:
+            Q.pop(0)
+        while W and W[0] <= start[i] - 1:
+            if not np.isnan(values[W[0]]):
+                nobs -= 1
+            W.pop(0)
+
+        # Save output based on index in input value array
+        if Q and curr_win_size > 0 and nobs >= min_periods:
+            output[i] = values[Q[0]]
+        else:
+            if values.dtype.kind != "i":
+                output[i] = np.nan
+            else:
+                na_pos.append(i)
+
+    return output, na_pos
+
+
+@numba.jit(nopython=True, nogil=True, parallel=False)
+def grouped_min_max(
+    values: np.ndarray,
+    result_dtype: np.dtype,
+    labels: npt.NDArray[np.intp],
+    ngroups: int,
+    min_periods: int,
+    is_max: bool,
+) -> tuple[np.ndarray, list[int]]:
+    N = len(labels)
+    nobs = np.zeros(ngroups, dtype=np.int64)
+    na_pos = []
+    output = np.empty(ngroups, dtype=result_dtype)
+
+    for i in range(N):
+        lab = labels[i]
+        val = values[i]
+        if lab < 0:
+            continue
+
+        if values.dtype.kind == "i" or not np.isnan(val):
+            nobs[lab] += 1
+        else:
+            # NaN value cannot be a min/max value
+            continue
+
+        if nobs[lab] == 1:
+            # First element in group, set output equal to this
+            output[lab] = val
+            continue
+
+        if is_max:
+            if val > output[lab]:
+                output[lab] = val
+        else:
+            if val < output[lab]:
+                output[lab] = val
+
+    # Set labels that don't satisfy min_periods as np.nan
+    for lab, count in enumerate(nobs):
+        if count < min_periods:
+            na_pos.append(lab)
+
+    return output, na_pos

Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/_numba/kernels/shared.py

@@ -0,0 +1,29 @@
+from __future__ import annotations
+
+from typing import TYPE_CHECKING
+
+import numba
+
+if TYPE_CHECKING:
+    import numpy as np
+
+
+@numba.jit(
+    # error: Any? not callable
+    numba.boolean(numba.int64[:]),  # type: ignore[misc]
+    nopython=True,
+    nogil=True,
+    parallel=False,
+)
+def is_monotonic_increasing(bounds: np.ndarray) -> bool:
+    """Check if int64 values are monotonically increasing."""
+    n = len(bounds)
+    if n < 2:
+        return True
+    prev = bounds[0]
+    for i in range(1, n):
+        cur = bounds[i]
+        if cur < prev:
+            return False
+        prev = cur
+    return True

Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/_numba/kernels/sum_.py

@@ -0,0 +1,244 @@
+"""
+Numba 1D sum kernels that can be shared by
+* Dataframe / Series
+* groupby
+* rolling / expanding
+
+Mirrors pandas/_libs/window/aggregation.pyx
+"""
+from __future__ import annotations
+
+from typing import (
+    TYPE_CHECKING,
+    Any,
+)
+
+import numba
+from numba.extending import register_jitable
+import numpy as np
+
+if TYPE_CHECKING:
+    from pandas._typing import npt
+
+from pandas.core._numba.kernels.shared import is_monotonic_increasing
+
+
+@numba.jit(nopython=True, nogil=True, parallel=False)
+def add_sum(
+    val: Any,
+    nobs: int,
+    sum_x: Any,
+    compensation: Any,
+    num_consecutive_same_value: int,
+    prev_value: Any,
+) -> tuple[int, Any, Any, int, Any]:
+    if not np.isnan(val):
+        nobs += 1
+        y = val - compensation
+        t = sum_x + y
+        compensation = t - sum_x - y
+        sum_x = t
+
+        if val == prev_value:
+            num_consecutive_same_value += 1
+        else:
+            num_consecutive_same_value = 1
+        prev_value = val
+
+    return nobs, sum_x, compensation, num_consecutive_same_value, prev_value
+
+
+@numba.jit(nopython=True, nogil=True, parallel=False)
+def remove_sum(
+    val: Any, nobs: int, sum_x: Any, compensation: Any
+) -> tuple[int, Any, Any]:
+    if not np.isnan(val):
+        nobs -= 1
+        y = -val - compensation
+        t = sum_x + y
+        compensation = t - sum_x - y
+        sum_x = t
+    return nobs, sum_x, compensation
+
+
+@numba.jit(nopython=True, nogil=True, parallel=False)
+def sliding_sum(
+    values: np.ndarray,
+    result_dtype: np.dtype,
+    start: np.ndarray,
+    end: np.ndarray,
+    min_periods: int,
+) -> tuple[np.ndarray, list[int]]:
+    dtype = values.dtype
+
+    na_val: object = np.nan
+    if dtype.kind == "i":
+        na_val = 0
+
+    N = len(start)
+    nobs = 0
+    sum_x = 0
+    compensation_add = 0
+    compensation_remove = 0
+    na_pos = []
+
+    is_monotonic_increasing_bounds = is_monotonic_increasing(
+        start
+    ) and is_monotonic_increasing(end)
+
+    output = np.empty(N, dtype=result_dtype)
+
+    for i in range(N):
+        s = start[i]
+        e = end[i]
+        if i == 0 or not is_monotonic_increasing_bounds:
+            prev_value = values[s]
+            num_consecutive_same_value = 0
+
+            for j in range(s, e):
+                val = values[j]
+                (
+                    nobs,
+                    sum_x,
+                    compensation_add,
+                    num_consecutive_same_value,
+                    prev_value,
+                ) = add_sum(
+                    val,
+                    nobs,
+                    sum_x,
+                    compensation_add,
+                    num_consecutive_same_value,
+                    prev_value,
+                )
+        else:
+            for j in range(start[i - 1], s):
+                val = values[j]
+                nobs, sum_x, compensation_remove = remove_sum(
+                    val, nobs, sum_x, compensation_remove
+                )
+
+            for j in range(end[i - 1], e):
+                val = values[j]
+                (
+                    nobs,
+                    sum_x,
+                    compensation_add,
+                    num_consecutive_same_value,
+                    prev_value,
+                ) = add_sum(
+                    val,
+                    nobs,
+                    sum_x,
+                    compensation_add,
+                    num_consecutive_same_value,
+                    prev_value,
+                )
+
+        if nobs == 0 == min_periods:
+            result: object = 0
+        elif nobs >= min_periods:
+            if num_consecutive_same_value >= nobs:
+                result = prev_value * nobs
+            else:
+                result = sum_x
+        else:
+            result = na_val
+            if dtype.kind == "i":
+                na_pos.append(i)
+
+        output[i] = result
+
+        if not is_monotonic_increasing_bounds:
+            nobs = 0
+            sum_x = 0
+            compensation_remove = 0
+
+    return output, na_pos
+
+
+# Mypy/pyright don't like the fact that the decorator is untyped
+@register_jitable  # type: ignore[misc]
+def grouped_kahan_sum(
+    values: np.ndarray,
+    result_dtype: np.dtype,
+    labels: npt.NDArray[np.intp],
+    ngroups: int,
+) -> tuple[
+    np.ndarray, npt.NDArray[np.int64], np.ndarray, npt.NDArray[np.int64], np.ndarray
+]:
+    N = len(labels)
+
+    nobs_arr = np.zeros(ngroups, dtype=np.int64)
+    comp_arr = np.zeros(ngroups, dtype=values.dtype)
+    consecutive_counts = np.zeros(ngroups, dtype=np.int64)
+    prev_vals = np.zeros(ngroups, dtype=values.dtype)
+    output = np.zeros(ngroups, dtype=result_dtype)
+
+    for i in range(N):
+        lab = labels[i]
+        val = values[i]
+
+        if lab < 0:
+            continue
+
+        sum_x = output[lab]
+        nobs = nobs_arr[lab]
+        compensation_add = comp_arr[lab]
+        num_consecutive_same_value = consecutive_counts[lab]
+        prev_value = prev_vals[lab]
+
+        (
+            nobs,
+            sum_x,
+            compensation_add,
+            num_consecutive_same_value,
+            prev_value,
+        ) = add_sum(
+            val,
+            nobs,
+            sum_x,
+            compensation_add,
+            num_consecutive_same_value,
+            prev_value,
+        )
+
+        output[lab] = sum_x
+        consecutive_counts[lab] = num_consecutive_same_value
+        prev_vals[lab] = prev_value
+        comp_arr[lab] = compensation_add
+        nobs_arr[lab] = nobs
+    return output, nobs_arr, comp_arr, consecutive_counts, prev_vals
+
+
+@numba.jit(nopython=True, nogil=True, parallel=False)
+def grouped_sum(
+    values: np.ndarray,
+    result_dtype: np.dtype,
+    labels: npt.NDArray[np.intp],
+    ngroups: int,
+    min_periods: int,
+) -> tuple[np.ndarray, list[int]]:
+    na_pos = []
+
+    output, nobs_arr, comp_arr, consecutive_counts, prev_vals = grouped_kahan_sum(
+        values, result_dtype, labels, ngroups
+    )
+
+    # Post-processing, replace sums that don't satisfy min_periods
+    for lab in range(ngroups):
+        nobs = nobs_arr[lab]
+        num_consecutive_same_value = consecutive_counts[lab]
+        prev_value = prev_vals[lab]
+        sum_x = output[lab]
+        if nobs >= min_periods:
+            if num_consecutive_same_value >= nobs:
+                result = prev_value * nobs
+            else:
+                result = sum_x
+        else:
+            result = sum_x  # Don't change val, will be replaced by nan later
+            na_pos.append(lab)
+        output[lab] = result
+
+    return output, na_pos

Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/_numba/kernels/var_.py

@@ -0,0 +1,245 @@
+"""
+Numba 1D var kernels that can be shared by
+* Dataframe / Series
+* groupby
+* rolling / expanding
+
+Mirrors pandas/_libs/window/aggregation.pyx
+"""
+from __future__ import annotations
+
+from typing import TYPE_CHECKING
+
+import numba
+import numpy as np
+
+if TYPE_CHECKING:
+    from pandas._typing import npt
+
+from pandas.core._numba.kernels.shared import is_monotonic_increasing
+
+
+@numba.jit(nopython=True, nogil=True, parallel=False)
+def add_var(
+    val: float,
+    nobs: int,
+    mean_x: float,
+    ssqdm_x: float,
+    compensation: float,
+    num_consecutive_same_value: int,
+    prev_value: float,
+) -> tuple[int, float, float, float, int, float]:
+    if not np.isnan(val):
+        if val == prev_value:
+            num_consecutive_same_value += 1
+        else:
+            num_consecutive_same_value = 1
+        prev_value = val
+
+        nobs += 1
+        prev_mean = mean_x - compensation
+        y = val - compensation
+        t = y - mean_x
+        compensation = t + mean_x - y
+        delta = t
+        if nobs:
+            mean_x += delta / nobs
+        else:
+            mean_x = 0
+        ssqdm_x += (val - prev_mean) * (val - mean_x)
+    return nobs, mean_x, ssqdm_x, compensation, num_consecutive_same_value, prev_value
+
+
+@numba.jit(nopython=True, nogil=True, parallel=False)
+def remove_var(
+    val: float, nobs: int, mean_x: float, ssqdm_x: float, compensation: float
+) -> tuple[int, float, float, float]:
+    if not np.isnan(val):
+        nobs -= 1
+        if nobs:
+            prev_mean = mean_x - compensation
+            y = val - compensation
+            t = y - mean_x
+            compensation = t + mean_x - y
+            delta = t
+            mean_x -= delta / nobs
+            ssqdm_x -= (val - prev_mean) * (val - mean_x)
+        else:
+            mean_x = 0
+            ssqdm_x = 0
+    return nobs, mean_x, ssqdm_x, compensation
+
+
+@numba.jit(nopython=True, nogil=True, parallel=False)
+def sliding_var(
+    values: np.ndarray,
+    result_dtype: np.dtype,
+    start: np.ndarray,
+    end: np.ndarray,
+    min_periods: int,
+    ddof: int = 1,
+) -> tuple[np.ndarray, list[int]]:
+    N = len(start)
+    nobs = 0
+    mean_x = 0.0
+    ssqdm_x = 0.0
+    compensation_add = 0.0
+    compensation_remove = 0.0
+
+    min_periods = max(min_periods, 1)
+    is_monotonic_increasing_bounds = is_monotonic_increasing(
+        start
+    ) and is_monotonic_increasing(end)
+
+    output = np.empty(N, dtype=result_dtype)
+
+    for i in range(N):
+        s = start[i]
+        e = end[i]
+        if i == 0 or not is_monotonic_increasing_bounds:
+            prev_value = values[s]
+            num_consecutive_same_value = 0
+
+            for j in range(s, e):
+                val = values[j]
+                (
+                    nobs,
+                    mean_x,
+                    ssqdm_x,
+                    compensation_add,
+                    num_consecutive_same_value,
+                    prev_value,
+                ) = add_var(
+                    val,
+                    nobs,
+                    mean_x,
+                    ssqdm_x,
+                    compensation_add,
+                    num_consecutive_same_value,
+                    prev_value,
+                )
+        else:
+            for j in range(start[i - 1], s):
+                val = values[j]
+                nobs, mean_x, ssqdm_x, compensation_remove = remove_var(
+                    val, nobs, mean_x, ssqdm_x, compensation_remove
+                )
+
+            for j in range(end[i - 1], e):
+                val = values[j]
+                (
+                    nobs,
+                    mean_x,
+                    ssqdm_x,
+                    compensation_add,
+                    num_consecutive_same_value,
+                    prev_value,
+                ) = add_var(
+                    val,
+                    nobs,
+                    mean_x,
+                    ssqdm_x,
+                    compensation_add,
+                    num_consecutive_same_value,
+                    prev_value,
+                )
+
+        if nobs >= min_periods and nobs > ddof:
+            if nobs == 1 or num_consecutive_same_value >= nobs:
+                result = 0.0
+            else:
+                result = ssqdm_x / (nobs - ddof)
+        else:
+            result = np.nan
+
+        output[i] = result
+
+        if not is_monotonic_increasing_bounds:
+            nobs = 0
+            mean_x = 0.0
+            ssqdm_x = 0.0
+            compensation_remove = 0.0
+
+    # na_position is empty list since float64 can already hold nans
+    # Do list comprehension, since numba cannot figure out that na_pos is
+    # empty list of ints on its own
+    na_pos = [0 for i in range(0)]
+    return output, na_pos
+
+
+@numba.jit(nopython=True, nogil=True, parallel=False)
+def grouped_var(
+    values: np.ndarray,
+    result_dtype: np.dtype,
+    labels: npt.NDArray[np.intp],
+    ngroups: int,
+    min_periods: int,
+    ddof: int = 1,
+) -> tuple[np.ndarray, list[int]]:
+    N = len(labels)
+
+    nobs_arr = np.zeros(ngroups, dtype=np.int64)
+    comp_arr = np.zeros(ngroups, dtype=values.dtype)
+    consecutive_counts = np.zeros(ngroups, dtype=np.int64)
+    prev_vals = np.zeros(ngroups, dtype=values.dtype)
+    output = np.zeros(ngroups, dtype=result_dtype)
+    means = np.zeros(ngroups, dtype=result_dtype)
+
+    for i in range(N):
+        lab = labels[i]
+        val = values[i]
+
+        if lab < 0:
+            continue
+
+        mean_x = means[lab]
+        ssqdm_x = output[lab]
+        nobs = nobs_arr[lab]
+        compensation_add = comp_arr[lab]
+        num_consecutive_same_value = consecutive_counts[lab]
+        prev_value = prev_vals[lab]
+
+        (
+            nobs,
+            mean_x,
+            ssqdm_x,
+            compensation_add,
+            num_consecutive_same_value,
+            prev_value,
+        ) = add_var(
+            val,
+            nobs,
+            mean_x,
+            ssqdm_x,
+            compensation_add,
+            num_consecutive_same_value,
+            prev_value,
+        )
+
+        output[lab] = ssqdm_x
+        means[lab] = mean_x
+        consecutive_counts[lab] = num_consecutive_same_value
+        prev_vals[lab] = prev_value
+        comp_arr[lab] = compensation_add
+        nobs_arr[lab] = nobs
+
+    # Post-processing, replace vars that don't satisfy min_periods
+    for lab in range(ngroups):
+        nobs = nobs_arr[lab]
+        num_consecutive_same_value = consecutive_counts[lab]
+        ssqdm_x = output[lab]
+        if nobs >= min_periods and nobs > ddof:
+            if nobs == 1 or num_consecutive_same_value >= nobs:
+                result = 0.0
+            else:
+                result = ssqdm_x / (nobs - ddof)
+        else:
+            result = np.nan
+        output[lab] = result
+
+    # Second pass to get the std.dev
+    # na_position is empty list since float64 can already hold nans
+    # Do list comprehension, since numba cannot figure out that na_pos is
+    # empty list of ints on its own
+    na_pos = [0 for i in range(0)]
+    return output, na_pos

Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/array_algos/__init__.py

@@ -0,0 +1,9 @@
+"""
+core.array_algos is for algorithms that operate on ndarray and ExtensionArray.
+These should:
+
+- Assume that any Index, Series, or DataFrame objects have already been unwrapped.
+- Assume that any list arguments have already been cast to ndarray/EA.
+- Not depend on Index, Series, or DataFrame, nor import any of these.
+- May dispatch to ExtensionArray methods, but should not import from core.arrays.
+"""

Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/array_algos/datetimelike_accumulations.py

@@ -0,0 +1,67 @@
+"""
+datetimelke_accumulations.py is for accumulations of datetimelike extension arrays
+"""
+
+from __future__ import annotations
+
+from typing import Callable
+
+import numpy as np
+
+from pandas._libs import iNaT
+
+from pandas.core.dtypes.missing import isna
+
+
+def _cum_func(
+    func: Callable,
+    values: np.ndarray,
+    *,
+    skipna: bool = True,
+):
+    """
+    Accumulations for 1D datetimelike arrays.
+
+    Parameters
+    ----------
+    func : np.cumsum, np.maximum.accumulate, np.minimum.accumulate
+    values : np.ndarray
+        Numpy array with the values (can be of any dtype that support the
+        operation). Values is changed is modified inplace.
+    skipna : bool, default True
+        Whether to skip NA.
+    """
+    try:
+        fill_value = {
+            np.maximum.accumulate: np.iinfo(np.int64).min,
+            np.cumsum: 0,
+            np.minimum.accumulate: np.iinfo(np.int64).max,
+        }[func]
+    except KeyError:
+        raise ValueError(f"No accumulation for {func} implemented on BaseMaskedArray")
+
+    mask = isna(values)
+    y = values.view("i8")
+    y[mask] = fill_value
+
+    if not skipna:
+        mask = np.maximum.accumulate(mask)
+
+    result = func(y)
+    result[mask] = iNaT
+
+    if values.dtype.kind in "mM":
+        return result.view(values.dtype.base)
+    return result
+
+
+def cumsum(values: np.ndarray, *, skipna: bool = True) -> np.ndarray:
+    return _cum_func(np.cumsum, values, skipna=skipna)
+
+
+def cummin(values: np.ndarray, *, skipna: bool = True):
+    return _cum_func(np.minimum.accumulate, values, skipna=skipna)
+
+
+def cummax(values: np.ndarray, *, skipna: bool = True):
+    return _cum_func(np.maximum.accumulate, values, skipna=skipna)

Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/array_algos/masked_accumulations.py

@@ -0,0 +1,90 @@
+"""
+masked_accumulations.py is for accumulation algorithms using a mask-based approach
+for missing values.
+"""
+
+from __future__ import annotations
+
+from typing import (
+    TYPE_CHECKING,
+    Callable,
+)
+
+import numpy as np
+
+if TYPE_CHECKING:
+    from pandas._typing import npt
+
+
+def _cum_func(
+    func: Callable,
+    values: np.ndarray,
+    mask: npt.NDArray[np.bool_],
+    *,
+    skipna: bool = True,
+):
+    """
+    Accumulations for 1D masked array.
+
+    We will modify values in place to replace NAs with the appropriate fill value.
+
+    Parameters
+    ----------
+    func : np.cumsum, np.cumprod, np.maximum.accumulate, np.minimum.accumulate
+    values : np.ndarray
+        Numpy array with the values (can be of any dtype that support the
+        operation).
+    mask : np.ndarray
+        Boolean numpy array (True values indicate missing values).
+    skipna : bool, default True
+        Whether to skip NA.
+    """
+    dtype_info: np.iinfo | np.finfo
+    if values.dtype.kind == "f":
+        dtype_info = np.finfo(values.dtype.type)
+    elif values.dtype.kind in "iu":
+        dtype_info = np.iinfo(values.dtype.type)
+    elif values.dtype.kind == "b":
+        # Max value of bool is 1, but since we are setting into a boolean
+        # array, 255 is fine as well. Min value has to be 0 when setting
+        # into the boolean array.
+        dtype_info = np.iinfo(np.uint8)
+    else:
+        raise NotImplementedError(
+            f"No masked accumulation defined for dtype {values.dtype.type}"
+        )
+    try:
+        fill_value = {
+            np.cumprod: 1,
+            np.maximum.accumulate: dtype_info.min,
+            np.cumsum: 0,
+            np.minimum.accumulate: dtype_info.max,
+        }[func]
+    except KeyError:
+        raise NotImplementedError(
+            f"No accumulation for {func} implemented on BaseMaskedArray"
+        )
+
+    values[mask] = fill_value
+
+    if not skipna:
+        mask = np.maximum.accumulate(mask)
+
+    values = func(values)
+    return values, mask
+
+
+def cumsum(values: np.ndarray, mask: npt.NDArray[np.bool_], *, skipna: bool = True):
+    return _cum_func(np.cumsum, values, mask, skipna=skipna)
+
+
+def cumprod(values: np.ndarray, mask: npt.NDArray[np.bool_], *, skipna: bool = True):
+    return _cum_func(np.cumprod, values, mask, skipna=skipna)
+
+
+def cummin(values: np.ndarray, mask: npt.NDArray[np.bool_], *, skipna: bool = True):
+    return _cum_func(np.minimum.accumulate, values, mask, skipna=skipna)
+
+
+def cummax(values: np.ndarray, mask: npt.NDArray[np.bool_], *, skipna: bool = True):
+    return _cum_func(np.maximum.accumulate, values, mask, skipna=skipna)

Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/array_algos/masked_reductions.py

@@ -0,0 +1,201 @@
+"""
+masked_reductions.py is for reduction algorithms using a mask-based approach
+for missing values.
+"""
+from __future__ import annotations
+
+from typing import (
+    TYPE_CHECKING,
+    Callable,
+)
+import warnings
+
+import numpy as np
+
+from pandas._libs import missing as libmissing
+
+from pandas.core.nanops import check_below_min_count
+
+if TYPE_CHECKING:
+    from pandas._typing import (
+        AxisInt,
+        npt,
+    )
+
+
+def _reductions(
+    func: Callable,
+    values: np.ndarray,
+    mask: npt.NDArray[np.bool_],
+    *,
+    skipna: bool = True,
+    min_count: int = 0,
+    axis: AxisInt | None = None,
+    **kwargs,
+):
+    """
+    Sum, mean or product for 1D masked array.
+
+    Parameters
+    ----------
+    func : np.sum or np.prod
+    values : np.ndarray
+        Numpy array with the values (can be of any dtype that support the
+        operation).
+    mask : np.ndarray[bool]
+        Boolean numpy array (True values indicate missing values).
+    skipna : bool, default True
+        Whether to skip NA.
+    min_count : int, default 0
+        The required number of valid values to perform the operation. If fewer than
+        ``min_count`` non-NA values are present the result will be NA.
+    axis : int, optional, default None
+    """
+    if not skipna:
+        if mask.any() or check_below_min_count(values.shape, None, min_count):
+            return libmissing.NA
+        else:
+            return func(values, axis=axis, **kwargs)
+    else:
+        if check_below_min_count(values.shape, mask, min_count) and (
+            axis is None or values.ndim == 1
+        ):
+            return libmissing.NA
+
+        if values.dtype == np.dtype(object):
+            # object dtype does not support `where` without passing an initial
+            values = values[~mask]
+            return func(values, axis=axis, **kwargs)
+        return func(values, where=~mask, axis=axis, **kwargs)
+
+
+def sum(
+    values: np.ndarray,
+    mask: npt.NDArray[np.bool_],
+    *,
+    skipna: bool = True,
+    min_count: int = 0,
+    axis: AxisInt | None = None,
+):
+    return _reductions(
+        np.sum, values=values, mask=mask, skipna=skipna, min_count=min_count, axis=axis
+    )
+
+
+def prod(
+    values: np.ndarray,
+    mask: npt.NDArray[np.bool_],
+    *,
+    skipna: bool = True,
+    min_count: int = 0,
+    axis: AxisInt | None = None,
+):
+    return _reductions(
+        np.prod, values=values, mask=mask, skipna=skipna, min_count=min_count, axis=axis
+    )
+
+
+def _minmax(
+    func: Callable,
+    values: np.ndarray,
+    mask: npt.NDArray[np.bool_],
+    *,
+    skipna: bool = True,
+    axis: AxisInt | None = None,
+):
+    """
+    Reduction for 1D masked array.
+
+    Parameters
+    ----------
+    func : np.min or np.max
+    values : np.ndarray
+        Numpy array with the values (can be of any dtype that support the
+        operation).
+    mask : np.ndarray[bool]
+        Boolean numpy array (True values indicate missing values).
+    skipna : bool, default True
+        Whether to skip NA.
+    axis : int, optional, default None
+    """
+    if not skipna:
+        if mask.any() or not values.size:
+            # min/max with empty array raise in numpy, pandas returns NA
+            return libmissing.NA
+        else:
+            return func(values, axis=axis)
+    else:
+        subset = values[~mask]
+        if subset.size:
+            return func(subset, axis=axis)
+        else:
+            # min/max with empty array raise in numpy, pandas returns NA
+            return libmissing.NA
+
+
+def min(
+    values: np.ndarray,
+    mask: npt.NDArray[np.bool_],
+    *,
+    skipna: bool = True,
+    axis: AxisInt | None = None,
+):
+    return _minmax(np.min, values=values, mask=mask, skipna=skipna, axis=axis)
+
+
+def max(
+    values: np.ndarray,
+    mask: npt.NDArray[np.bool_],
+    *,
+    skipna: bool = True,
+    axis: AxisInt | None = None,
+):
+    return _minmax(np.max, values=values, mask=mask, skipna=skipna, axis=axis)
+
+
+def mean(
+    values: np.ndarray,
+    mask: npt.NDArray[np.bool_],
+    *,
+    skipna: bool = True,
+    axis: AxisInt | None = None,
+):
+    if not values.size or mask.all():
+        return libmissing.NA
+    return _reductions(np.mean, values=values, mask=mask, skipna=skipna, axis=axis)
+
+
+def var(
+    values: np.ndarray,
+    mask: npt.NDArray[np.bool_],
+    *,
+    skipna: bool = True,
+    axis: AxisInt | None = None,
+    ddof: int = 1,
+):
+    if not values.size or mask.all():
+        return libmissing.NA
+
+    with warnings.catch_warnings():
+        warnings.simplefilter("ignore", RuntimeWarning)
+        return _reductions(
+            np.var, values=values, mask=mask, skipna=skipna, axis=axis, ddof=ddof
+        )
+
+
+def std(
+    values: np.ndarray,
+    mask: npt.NDArray[np.bool_],
+    *,
+    skipna: bool = True,
+    axis: AxisInt | None = None,
+    ddof: int = 1,
+):
+    if not values.size or mask.all():
+        return libmissing.NA
+
+    with warnings.catch_warnings():
+        warnings.simplefilter("ignore", RuntimeWarning)
+        return _reductions(
+            np.std, values=values, mask=mask, skipna=skipna, axis=axis, ddof=ddof
+        )

Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/array_algos/putmask.py

@@ -0,0 +1,149 @@
+"""
+EA-compatible analogue to np.putmask
+"""
+from __future__ import annotations
+
+from typing import (
+    TYPE_CHECKING,
+    Any,
+)
+
+import numpy as np
+
+from pandas._libs import lib
+
+from pandas.core.dtypes.cast import infer_dtype_from
+from pandas.core.dtypes.common import is_list_like
+
+from pandas.core.arrays import ExtensionArray
+
+if TYPE_CHECKING:
+    from pandas._typing import (
+        ArrayLike,
+        npt,
+    )
+
+    from pandas import MultiIndex
+
+
+def putmask_inplace(values: ArrayLike, mask: npt.NDArray[np.bool_], value: Any) -> None:
+    """
+    ExtensionArray-compatible implementation of np.putmask.  The main
+    difference is we do not handle repeating or truncating like numpy.
+
+    Parameters
+    ----------
+    values: np.ndarray or ExtensionArray
+    mask : np.ndarray[bool]
+        We assume extract_bool_array has already been called.
+    value : Any
+    """
+
+    if (
+        not isinstance(values, np.ndarray)
+        or (values.dtype == object and not lib.is_scalar(value))
+        # GH#43424: np.putmask raises TypeError if we cannot cast between types with
+        # rule = "safe", a stricter guarantee we may not have here
+        or (
+            isinstance(value, np.ndarray) and not np.can_cast(value.dtype, values.dtype)
+        )
+    ):
+        # GH#19266 using np.putmask gives unexpected results with listlike value
+        #  along with object dtype
+        if is_list_like(value) and len(value) == len(values):
+            values[mask] = value[mask]
+        else:
+            values[mask] = value
+    else:
+        # GH#37833 np.putmask is more performant than __setitem__
+        np.putmask(values, mask, value)
+
+
+def putmask_without_repeat(
+    values: np.ndarray, mask: npt.NDArray[np.bool_], new: Any
+) -> None:
+    """
+    np.putmask will truncate or repeat if `new` is a listlike with
+    len(new) != len(values).  We require an exact match.
+
+    Parameters
+    ----------
+    values : np.ndarray
+    mask : np.ndarray[bool]
+    new : Any
+    """
+    if getattr(new, "ndim", 0) >= 1:
+        new = new.astype(values.dtype, copy=False)
+
+    # TODO: this prob needs some better checking for 2D cases
+    nlocs = mask.sum()
+    if nlocs > 0 and is_list_like(new) and getattr(new, "ndim", 1) == 1:
+        shape = np.shape(new)
+        # np.shape compat for if setitem_datetimelike_compat
+        #  changed arraylike to list e.g. test_where_dt64_2d
+        if nlocs == shape[-1]:
+            # GH#30567
+            # If length of ``new`` is less than the length of ``values``,
+            # `np.putmask` would first repeat the ``new`` array and then
+            # assign the masked values hence produces incorrect result.
+            # `np.place` on the other hand uses the ``new`` values at it is
+            # to place in the masked locations of ``values``
+            np.place(values, mask, new)
+            # i.e. values[mask] = new
+        elif mask.shape[-1] == shape[-1] or shape[-1] == 1:
+            np.putmask(values, mask, new)
+        else:
+            raise ValueError("cannot assign mismatch length to masked array")
+    else:
+        np.putmask(values, mask, new)
+
+
+def validate_putmask(
+    values: ArrayLike | MultiIndex, mask: np.ndarray
+) -> tuple[npt.NDArray[np.bool_], bool]:
+    """
+    Validate mask and check if this putmask operation is a no-op.
+    """
+    mask = extract_bool_array(mask)
+    if mask.shape != values.shape:
+        raise ValueError("putmask: mask and data must be the same size")
+
+    noop = not mask.any()
+    return mask, noop
+
+
+def extract_bool_array(mask: ArrayLike) -> npt.NDArray[np.bool_]:
+    """
+    If we have a SparseArray or BooleanArray, convert it to ndarray[bool].
+    """
+    if isinstance(mask, ExtensionArray):
+        # We could have BooleanArray, Sparse[bool], ...
+        #  Except for BooleanArray, this is equivalent to just
+        #  np.asarray(mask, dtype=bool)
+        mask = mask.to_numpy(dtype=bool, na_value=False)
+
+    mask = np.asarray(mask, dtype=bool)
+    return mask
+
+
+def setitem_datetimelike_compat(values: np.ndarray, num_set: int, other):
+    """
+    Parameters
+    ----------
+    values : np.ndarray
+    num_set : int
+        For putmask, this is mask.sum()
+    other : Any
+    """
+    if values.dtype == object:
+        dtype, _ = infer_dtype_from(other)
+
+        if lib.is_np_dtype(dtype, "mM"):
+            # https://github.com/numpy/numpy/issues/12550
+            #  timedelta64 will incorrectly cast to int
+            if not is_list_like(other):
+                other = [other] * num_set
+            else:
+                other = list(other)
+
+    return other

Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/array_algos/quantile.py

@@ -0,0 +1,226 @@
+from __future__ import annotations
+
+from typing import TYPE_CHECKING
+
+import numpy as np
+
+from pandas.core.dtypes.missing import (
+    isna,
+    na_value_for_dtype,
+)
+
+if TYPE_CHECKING:
+    from pandas._typing import (
+        ArrayLike,
+        Scalar,
+        npt,
+    )
+
+
+def quantile_compat(
+    values: ArrayLike, qs: npt.NDArray[np.float64], interpolation: str
+) -> ArrayLike:
+    """
+    Compute the quantiles of the given values for each quantile in `qs`.
+
+    Parameters
+    ----------
+    values : np.ndarray or ExtensionArray
+    qs : np.ndarray[float64]
+    interpolation : str
+
+    Returns
+    -------
+    np.ndarray or ExtensionArray
+    """
+    if isinstance(values, np.ndarray):
+        fill_value = na_value_for_dtype(values.dtype, compat=False)
+        mask = isna(values)
+        return quantile_with_mask(values, mask, fill_value, qs, interpolation)
+    else:
+        return values._quantile(qs, interpolation)
+
+
+def quantile_with_mask(
+    values: np.ndarray,
+    mask: npt.NDArray[np.bool_],
+    fill_value,
+    qs: npt.NDArray[np.float64],
+    interpolation: str,
+) -> np.ndarray:
+    """
+    Compute the quantiles of the given values for each quantile in `qs`.
+
+    Parameters
+    ----------
+    values : np.ndarray
+        For ExtensionArray, this is _values_for_factorize()[0]
+    mask : np.ndarray[bool]
+        mask = isna(values)
+        For ExtensionArray, this is computed before calling _value_for_factorize
+    fill_value : Scalar
+        The value to interpret fill NA entries with
+        For ExtensionArray, this is _values_for_factorize()[1]
+    qs : np.ndarray[float64]
+    interpolation : str
+        Type of interpolation
+
+    Returns
+    -------
+    np.ndarray
+
+    Notes
+    -----
+    Assumes values is already 2D.  For ExtensionArray this means np.atleast_2d
+    has been called on _values_for_factorize()[0]
+
+    Quantile is computed along axis=1.
+    """
+    assert values.shape == mask.shape
+    if values.ndim == 1:
+        # unsqueeze, operate, re-squeeze
+        values = np.atleast_2d(values)
+        mask = np.atleast_2d(mask)
+        res_values = quantile_with_mask(values, mask, fill_value, qs, interpolation)
+        return res_values[0]
+
+    assert values.ndim == 2
+
+    is_empty = values.shape[1] == 0
+
+    if is_empty:
+        # create the array of na_values
+        # 2d len(values) * len(qs)
+        flat = np.array([fill_value] * len(qs))
+        result = np.repeat(flat, len(values)).reshape(len(values), len(qs))
+    else:
+        result = _nanpercentile(
+            values,
+            qs * 100.0,
+            na_value=fill_value,
+            mask=mask,
+            interpolation=interpolation,
+        )
+
+        result = np.asarray(result)
+        result = result.T
+
+    return result
+
+
+def _nanpercentile_1d(
+    values: np.ndarray,
+    mask: npt.NDArray[np.bool_],
+    qs: npt.NDArray[np.float64],
+    na_value: Scalar,
+    interpolation: str,
+) -> Scalar | np.ndarray:
+    """
+    Wrapper for np.percentile that skips missing values, specialized to
+    1-dimensional case.
+
+    Parameters
+    ----------
+    values : array over which to find quantiles
+    mask : ndarray[bool]
+        locations in values that should be considered missing
+    qs : np.ndarray[float64] of quantile indices to find
+    na_value : scalar
+        value to return for empty or all-null values
+    interpolation : str
+
+    Returns
+    -------
+    quantiles : scalar or array
+    """
+    # mask is Union[ExtensionArray, ndarray]
+    values = values[~mask]
+
+    if len(values) == 0:
+        # Can't pass dtype=values.dtype here bc we might have na_value=np.nan
+        #  with values.dtype=int64 see test_quantile_empty
+        # equiv: 'np.array([na_value] * len(qs))' but much faster
+        return np.full(len(qs), na_value)
+
+    return np.percentile(
+        values,
+        qs,
+        # error: No overload variant of "percentile" matches argument
+        # types "ndarray[Any, Any]", "ndarray[Any, dtype[floating[_64Bit]]]"
+        # , "Dict[str, str]"  [call-overload]
+        method=interpolation,  # type: ignore[call-overload]
+    )
+
+
+def _nanpercentile(
+    values: np.ndarray,
+    qs: npt.NDArray[np.float64],
+    *,
+    na_value,
+    mask: npt.NDArray[np.bool_],
+    interpolation: str,
+):
+    """
+    Wrapper for np.percentile that skips missing values.
+
+    Parameters
+    ----------
+    values : np.ndarray[ndim=2]  over which to find quantiles
+    qs : np.ndarray[float64] of quantile indices to find
+    na_value : scalar
+        value to return for empty or all-null values
+    mask : np.ndarray[bool]
+        locations in values that should be considered missing
+    interpolation : str
+
+    Returns
+    -------
+    quantiles : scalar or array
+    """
+
+    if values.dtype.kind in "mM":
+        # need to cast to integer to avoid rounding errors in numpy
+        result = _nanpercentile(
+            values.view("i8"),
+            qs=qs,
+            na_value=na_value.view("i8"),
+            mask=mask,
+            interpolation=interpolation,
+        )
+
+        # Note: we have to do `astype` and not view because in general we
+        #  have float result at this point, not i8
+        return result.astype(values.dtype)
+
+    if mask.any():
+        # Caller is responsible for ensuring mask shape match
+        assert mask.shape == values.shape
+        result = [
+            _nanpercentile_1d(val, m, qs, na_value, interpolation=interpolation)
+            for (val, m) in zip(list(values), list(mask))
+        ]
+        if values.dtype.kind == "f":
+            # preserve itemsize
+            result = np.asarray(result, dtype=values.dtype).T
+        else:
+            result = np.asarray(result).T
+            if (
+                result.dtype != values.dtype
+                and not mask.all()
+                and (result == result.astype(values.dtype, copy=False)).all()
+            ):
+                # mask.all() will never get cast back to int
+                # e.g. values id integer dtype and result is floating dtype,
+                #  only cast back to integer dtype if result values are all-integer.
+                result = result.astype(values.dtype, copy=False)
+        return result
+    else:
+        return np.percentile(
+            values,
+            qs,
+            axis=1,
+            # error: No overload variant of "percentile" matches argument types
+            # "ndarray[Any, Any]", "ndarray[Any, dtype[floating[_64Bit]]]",
+            # "int", "Dict[str, str]"  [call-overload]
+            method=interpolation,  # type: ignore[call-overload]
+        )

Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/array_algos/replace.py

@@ -0,0 +1,154 @@
+"""
+Methods used by Block.replace and related methods.
+"""
+from __future__ import annotations
+
+import operator
+import re
+from re import Pattern
+from typing import (
+    TYPE_CHECKING,
+    Any,
+)
+
+import numpy as np
+
+from pandas.core.dtypes.common import (
+    is_bool,
+    is_re,
+    is_re_compilable,
+)
+from pandas.core.dtypes.missing import isna
+
+if TYPE_CHECKING:
+    from pandas._typing import (
+        ArrayLike,
+        Scalar,
+        npt,
+    )
+
+
+def should_use_regex(regex: bool, to_replace: Any) -> bool:
+    """
+    Decide whether to treat `to_replace` as a regular expression.
+    """
+    if is_re(to_replace):
+        regex = True
+
+    regex = regex and is_re_compilable(to_replace)
+
+    # Don't use regex if the pattern is empty.
+    regex = regex and re.compile(to_replace).pattern != ""
+    return regex
+
+
+def compare_or_regex_search(
+    a: ArrayLike, b: Scalar | Pattern, regex: bool, mask: npt.NDArray[np.bool_]
+) -> ArrayLike:
+    """
+    Compare two array-like inputs of the same shape or two scalar values
+
+    Calls operator.eq or re.search, depending on regex argument. If regex is
+    True, perform an element-wise regex matching.
+
+    Parameters
+    ----------
+    a : array-like
+    b : scalar or regex pattern
+    regex : bool
+    mask : np.ndarray[bool]
+
+    Returns
+    -------
+    mask : array-like of bool
+    """
+    if isna(b):
+        return ~mask
+
+    def _check_comparison_types(
+        result: ArrayLike | bool, a: ArrayLike, b: Scalar | Pattern
+    ):
+        """
+        Raises an error if the two arrays (a,b) cannot be compared.
+        Otherwise, returns the comparison result as expected.
+        """
+        if is_bool(result) and isinstance(a, np.ndarray):
+            type_names = [type(a).__name__, type(b).__name__]
+
+            type_names[0] = f"ndarray(dtype={a.dtype})"
+
+            raise TypeError(
+                f"Cannot compare types {repr(type_names[0])} and {repr(type_names[1])}"
+            )
+
+    if not regex or not should_use_regex(regex, b):
+        # TODO: should use missing.mask_missing?
+        op = lambda x: operator.eq(x, b)
+    else:
+        op = np.vectorize(
+            lambda x: bool(re.search(b, x))
+            if isinstance(x, str) and isinstance(b, (str, Pattern))
+            else False
+        )
+
+    # GH#32621 use mask to avoid comparing to NAs
+    if isinstance(a, np.ndarray):
+        a = a[mask]
+
+    result = op(a)
+
+    if isinstance(result, np.ndarray) and mask is not None:
+        # The shape of the mask can differ to that of the result
+        # since we may compare only a subset of a's or b's elements
+        tmp = np.zeros(mask.shape, dtype=np.bool_)
+        np.place(tmp, mask, result)
+        result = tmp
+
+    _check_comparison_types(result, a, b)
+    return result
+
+
+def replace_regex(
+    values: ArrayLike, rx: re.Pattern, value, mask: npt.NDArray[np.bool_] | None
+) -> None:
+    """
+    Parameters
+    ----------
+    values : ArrayLike
+        Object dtype.
+    rx : re.Pattern
+    value : Any
+    mask : np.ndarray[bool], optional
+
+    Notes
+    -----
+    Alters values in-place.
+    """
+
+    # deal with replacing values with objects (strings) that match but
+    # whose replacement is not a string (numeric, nan, object)
+    if isna(value) or not isinstance(value, str):
+
+        def re_replacer(s):
+            if is_re(rx) and isinstance(s, str):
+                return value if rx.search(s) is not None else s
+            else:
+                return s
+
+    else:
+        # value is guaranteed to be a string here, s can be either a string
+        # or null if it's null it gets returned
+        def re_replacer(s):
+            if is_re(rx) and isinstance(s, str):
+                return rx.sub(value, s)
+            else:
+                return s
+
+    f = np.vectorize(re_replacer, otypes=[np.object_])
+
+    if mask is None:
+        values[:] = f(values)
+    else:
+        if values.ndim != mask.ndim:
+            mask = np.broadcast_to(mask, values.shape)
+        values[mask] = f(values[mask])

Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/array_algos/take.py

@@ -0,0 +1,594 @@
+from __future__ import annotations
+
+import functools
+from typing import (
+    TYPE_CHECKING,
+    cast,
+    overload,
+)
+
+import numpy as np
+
+from pandas._libs import (
+    algos as libalgos,
+    lib,
+)
+
+from pandas.core.dtypes.cast import maybe_promote
+from pandas.core.dtypes.common import (
+    ensure_platform_int,
+    is_1d_only_ea_dtype,
+)
+from pandas.core.dtypes.missing import na_value_for_dtype
+
+from pandas.core.construction import ensure_wrapped_if_datetimelike
+
+if TYPE_CHECKING:
+    from pandas._typing import (
+        ArrayLike,
+        AxisInt,
+        npt,
+    )
+
+    from pandas.core.arrays._mixins import NDArrayBackedExtensionArray
+    from pandas.core.arrays.base import ExtensionArray
+
+
+@overload
+def take_nd(
+    arr: np.ndarray,
+    indexer,
+    axis: AxisInt = ...,
+    fill_value=...,
+    allow_fill: bool = ...,
+) -> np.ndarray:
+    ...
+
+
+@overload
+def take_nd(
+    arr: ExtensionArray,
+    indexer,
+    axis: AxisInt = ...,
+    fill_value=...,
+    allow_fill: bool = ...,
+) -> ArrayLike:
+    ...
+
+
+def take_nd(
+    arr: ArrayLike,
+    indexer,
+    axis: AxisInt = 0,
+    fill_value=lib.no_default,
+    allow_fill: bool = True,
+) -> ArrayLike:
+    """
+    Specialized Cython take which sets NaN values in one pass
+
+    This dispatches to ``take`` defined on ExtensionArrays.
+
+    Note: this function assumes that the indexer is a valid(ated) indexer with
+    no out of bound indices.
+
+    Parameters
+    ----------
+    arr : np.ndarray or ExtensionArray
+        Input array.
+    indexer : ndarray
+        1-D array of indices to take, subarrays corresponding to -1 value
+        indices are filed with fill_value
+    axis : int, default 0
+        Axis to take from
+    fill_value : any, default np.nan
+        Fill value to replace -1 values with
+    allow_fill : bool, default True
+        If False, indexer is assumed to contain no -1 values so no filling
+        will be done.  This short-circuits computation of a mask.  Result is
+        undefined if allow_fill == False and -1 is present in indexer.
+
+    Returns
+    -------
+    subarray : np.ndarray or ExtensionArray
+        May be the same type as the input, or cast to an ndarray.
+    """
+    if fill_value is lib.no_default:
+        fill_value = na_value_for_dtype(arr.dtype, compat=False)
+    elif lib.is_np_dtype(arr.dtype, "mM"):
+        dtype, fill_value = maybe_promote(arr.dtype, fill_value)
+        if arr.dtype != dtype:
+            # EA.take is strict about returning a new object of the same type
+            # so for that case cast upfront
+            arr = arr.astype(dtype)
+
+    if not isinstance(arr, np.ndarray):
+        # i.e. ExtensionArray,
+        # includes for EA to catch DatetimeArray, TimedeltaArray
+        if not is_1d_only_ea_dtype(arr.dtype):
+            # i.e. DatetimeArray, TimedeltaArray
+            arr = cast("NDArrayBackedExtensionArray", arr)
+            return arr.take(
+                indexer, fill_value=fill_value, allow_fill=allow_fill, axis=axis
+            )
+
+        return arr.take(indexer, fill_value=fill_value, allow_fill=allow_fill)
+
+    arr = np.asarray(arr)
+    return _take_nd_ndarray(arr, indexer, axis, fill_value, allow_fill)
+
+
+def _take_nd_ndarray(
+    arr: np.ndarray,
+    indexer: npt.NDArray[np.intp] | None,
+    axis: AxisInt,
+    fill_value,
+    allow_fill: bool,
+) -> np.ndarray:
+    if indexer is None:
+        indexer = np.arange(arr.shape[axis], dtype=np.intp)
+        dtype, fill_value = arr.dtype, arr.dtype.type()
+    else:
+        indexer = ensure_platform_int(indexer)
+
+    dtype, fill_value, mask_info = _take_preprocess_indexer_and_fill_value(
+        arr, indexer, fill_value, allow_fill
+    )
+
+    flip_order = False
+    if arr.ndim == 2 and arr.flags.f_contiguous:
+        flip_order = True
+
+    if flip_order:
+        arr = arr.T
+        axis = arr.ndim - axis - 1
+
+    # at this point, it's guaranteed that dtype can hold both the arr values
+    # and the fill_value
+    out_shape_ = list(arr.shape)
+    out_shape_[axis] = len(indexer)
+    out_shape = tuple(out_shape_)
+    if arr.flags.f_contiguous and axis == arr.ndim - 1:
+        # minor tweak that can make an order-of-magnitude difference
+        # for dataframes initialized directly from 2-d ndarrays
+        # (s.t. df.values is c-contiguous and df._mgr.blocks[0] is its
+        # f-contiguous transpose)
+        out = np.empty(out_shape, dtype=dtype, order="F")
+    else:
+        out = np.empty(out_shape, dtype=dtype)
+
+    func = _get_take_nd_function(
+        arr.ndim, arr.dtype, out.dtype, axis=axis, mask_info=mask_info
+    )
+    func(arr, indexer, out, fill_value)
+
+    if flip_order:
+        out = out.T
+    return out
+
+
+def take_1d(
+    arr: ArrayLike,
+    indexer: npt.NDArray[np.intp],
+    fill_value=None,
+    allow_fill: bool = True,
+    mask: npt.NDArray[np.bool_] | None = None,
+) -> ArrayLike:
+    """
+    Specialized version for 1D arrays. Differences compared to `take_nd`:
+
+    - Assumes input array has already been converted to numpy array / EA
+    - Assumes indexer is already guaranteed to be intp dtype ndarray
+    - Only works for 1D arrays
+
+    To ensure the lowest possible overhead.
+
+    Note: similarly to `take_nd`, this function assumes that the indexer is
+    a valid(ated) indexer with no out of bound indices.
+
+    Parameters
+    ----------
+    arr : np.ndarray or ExtensionArray
+        Input array.
+    indexer : ndarray
+        1-D array of indices to take (validated indices, intp dtype).
+    fill_value : any, default np.nan
+        Fill value to replace -1 values with
+    allow_fill : bool, default True
+        If False, indexer is assumed to contain no -1 values so no filling
+        will be done.  This short-circuits computation of a mask. Result is
+        undefined if allow_fill == False and -1 is present in indexer.
+    mask : np.ndarray, optional, default None
+        If `allow_fill` is True, and the mask (where indexer == -1) is already
+        known, it can be passed to avoid recomputation.
+    """
+    if not isinstance(arr, np.ndarray):
+        # ExtensionArray -> dispatch to their method
+        return arr.take(indexer, fill_value=fill_value, allow_fill=allow_fill)
+
+    if not allow_fill:
+        return arr.take(indexer)
+
+    dtype, fill_value, mask_info = _take_preprocess_indexer_and_fill_value(
+        arr, indexer, fill_value, True, mask
+    )
+
+    # at this point, it's guaranteed that dtype can hold both the arr values
+    # and the fill_value
+    out = np.empty(indexer.shape, dtype=dtype)
+
+    func = _get_take_nd_function(
+        arr.ndim, arr.dtype, out.dtype, axis=0, mask_info=mask_info
+    )
+    func(arr, indexer, out, fill_value)
+
+    return out
+
+
+def take_2d_multi(
+    arr: np.ndarray,
+    indexer: tuple[npt.NDArray[np.intp], npt.NDArray[np.intp]],
+    fill_value=np.nan,
+) -> np.ndarray:
+    """
+    Specialized Cython take which sets NaN values in one pass.
+    """
+    # This is only called from one place in DataFrame._reindex_multi,
+    #  so we know indexer is well-behaved.
+    assert indexer is not None
+    assert indexer[0] is not None
+    assert indexer[1] is not None
+
+    row_idx, col_idx = indexer
+
+    row_idx = ensure_platform_int(row_idx)
+    col_idx = ensure_platform_int(col_idx)
+    indexer = row_idx, col_idx
+    mask_info = None
+
+    # check for promotion based on types only (do this first because
+    # it's faster than computing a mask)
+    dtype, fill_value = maybe_promote(arr.dtype, fill_value)
+    if dtype != arr.dtype:
+        # check if promotion is actually required based on indexer
+        row_mask = row_idx == -1
+        col_mask = col_idx == -1
+        row_needs = row_mask.any()
+        col_needs = col_mask.any()
+        mask_info = (row_mask, col_mask), (row_needs, col_needs)
+
+        if not (row_needs or col_needs):
+            # if not, then depromote, set fill_value to dummy
+            # (it won't be used but we don't want the cython code
+            # to crash when trying to cast it to dtype)
+            dtype, fill_value = arr.dtype, arr.dtype.type()
+
+    # at this point, it's guaranteed that dtype can hold both the arr values
+    # and the fill_value
+    out_shape = len(row_idx), len(col_idx)
+    out = np.empty(out_shape, dtype=dtype)
+
+    func = _take_2d_multi_dict.get((arr.dtype.name, out.dtype.name), None)
+    if func is None and arr.dtype != out.dtype:
+        func = _take_2d_multi_dict.get((out.dtype.name, out.dtype.name), None)
+        if func is not None:
+            func = _convert_wrapper(func, out.dtype)
+
+    if func is not None:
+        func(arr, indexer, out=out, fill_value=fill_value)
+    else:
+        # test_reindex_multi
+        _take_2d_multi_object(
+            arr, indexer, out, fill_value=fill_value, mask_info=mask_info
+        )
+
+    return out
+
+
+@functools.lru_cache
+def _get_take_nd_function_cached(
+    ndim: int, arr_dtype: np.dtype, out_dtype: np.dtype, axis: AxisInt
+):
+    """
+    Part of _get_take_nd_function below that doesn't need `mask_info` and thus
+    can be cached (mask_info potentially contains a numpy ndarray which is not
+    hashable and thus cannot be used as argument for cached function).
+    """
+    tup = (arr_dtype.name, out_dtype.name)
+    if ndim == 1:
+        func = _take_1d_dict.get(tup, None)
+    elif ndim == 2:
+        if axis == 0:
+            func = _take_2d_axis0_dict.get(tup, None)
+        else:
+            func = _take_2d_axis1_dict.get(tup, None)
+    if func is not None:
+        return func
+
+    # We get here with string, uint, float16, and complex dtypes that could
+    #  potentially be handled in algos_take_helper.
+    #  Also a couple with (M8[ns], object) and (m8[ns], object)
+    tup = (out_dtype.name, out_dtype.name)
+    if ndim == 1:
+        func = _take_1d_dict.get(tup, None)
+    elif ndim == 2:
+        if axis == 0:
+            func = _take_2d_axis0_dict.get(tup, None)
+        else:
+            func = _take_2d_axis1_dict.get(tup, None)
+    if func is not None:
+        func = _convert_wrapper(func, out_dtype)
+        return func
+
+    return None
+
+
+def _get_take_nd_function(
+    ndim: int,
+    arr_dtype: np.dtype,
+    out_dtype: np.dtype,
+    axis: AxisInt = 0,
+    mask_info=None,
+):
+    """
+    Get the appropriate "take" implementation for the given dimension, axis
+    and dtypes.
+    """
+    func = None
+    if ndim <= 2:
+        # for this part we don't need `mask_info` -> use the cached algo lookup
+        func = _get_take_nd_function_cached(ndim, arr_dtype, out_dtype, axis)
+
+    if func is None:
+
+        def func(arr, indexer, out, fill_value=np.nan) -> None:
+            indexer = ensure_platform_int(indexer)
+            _take_nd_object(
+                arr, indexer, out, axis=axis, fill_value=fill_value, mask_info=mask_info
+            )
+
+    return func
+
+
+def _view_wrapper(f, arr_dtype=None, out_dtype=None, fill_wrap=None):
+    def wrapper(
+        arr: np.ndarray, indexer: np.ndarray, out: np.ndarray, fill_value=np.nan
+    ) -> None:
+        if arr_dtype is not None:
+            arr = arr.view(arr_dtype)
+        if out_dtype is not None:
+            out = out.view(out_dtype)
+        if fill_wrap is not None:
+            # FIXME: if we get here with dt64/td64 we need to be sure we have
+            #  matching resos
+            if fill_value.dtype.kind == "m":
+                fill_value = fill_value.astype("m8[ns]")
+            else:
+                fill_value = fill_value.astype("M8[ns]")
+            fill_value = fill_wrap(fill_value)
+
+        f(arr, indexer, out, fill_value=fill_value)
+
+    return wrapper
+
+
+def _convert_wrapper(f, conv_dtype):
+    def wrapper(
+        arr: np.ndarray, indexer: np.ndarray, out: np.ndarray, fill_value=np.nan
+    ) -> None:
+        if conv_dtype == object:
+            # GH#39755 avoid casting dt64/td64 to integers
+            arr = ensure_wrapped_if_datetimelike(arr)
+        arr = arr.astype(conv_dtype)
+        f(arr, indexer, out, fill_value=fill_value)
+
+    return wrapper
+
+
+_take_1d_dict = {
+    ("int8", "int8"): libalgos.take_1d_int8_int8,
+    ("int8", "int32"): libalgos.take_1d_int8_int32,
+    ("int8", "int64"): libalgos.take_1d_int8_int64,
+    ("int8", "float64"): libalgos.take_1d_int8_float64,
+    ("int16", "int16"): libalgos.take_1d_int16_int16,
+    ("int16", "int32"): libalgos.take_1d_int16_int32,
+    ("int16", "int64"): libalgos.take_1d_int16_int64,
+    ("int16", "float64"): libalgos.take_1d_int16_float64,
+    ("int32", "int32"): libalgos.take_1d_int32_int32,
+    ("int32", "int64"): libalgos.take_1d_int32_int64,
+    ("int32", "float64"): libalgos.take_1d_int32_float64,
+    ("int64", "int64"): libalgos.take_1d_int64_int64,
+    ("int64", "float64"): libalgos.take_1d_int64_float64,
+    ("float32", "float32"): libalgos.take_1d_float32_float32,
+    ("float32", "float64"): libalgos.take_1d_float32_float64,
+    ("float64", "float64"): libalgos.take_1d_float64_float64,
+    ("object", "object"): libalgos.take_1d_object_object,
+    ("bool", "bool"): _view_wrapper(libalgos.take_1d_bool_bool, np.uint8, np.uint8),
+    ("bool", "object"): _view_wrapper(libalgos.take_1d_bool_object, np.uint8, None),
+    ("datetime64[ns]", "datetime64[ns]"): _view_wrapper(
+        libalgos.take_1d_int64_int64, np.int64, np.int64, np.int64
+    ),
+    ("timedelta64[ns]", "timedelta64[ns]"): _view_wrapper(
+        libalgos.take_1d_int64_int64, np.int64, np.int64, np.int64
+    ),
+}
+
+_take_2d_axis0_dict = {
+    ("int8", "int8"): libalgos.take_2d_axis0_int8_int8,
+    ("int8", "int32"): libalgos.take_2d_axis0_int8_int32,
+    ("int8", "int64"): libalgos.take_2d_axis0_int8_int64,
+    ("int8", "float64"): libalgos.take_2d_axis0_int8_float64,
+    ("int16", "int16"): libalgos.take_2d_axis0_int16_int16,
+    ("int16", "int32"): libalgos.take_2d_axis0_int16_int32,
+    ("int16", "int64"): libalgos.take_2d_axis0_int16_int64,
+    ("int16", "float64"): libalgos.take_2d_axis0_int16_float64,
+    ("int32", "int32"): libalgos.take_2d_axis0_int32_int32,
+    ("int32", "int64"): libalgos.take_2d_axis0_int32_int64,
+    ("int32", "float64"): libalgos.take_2d_axis0_int32_float64,
+    ("int64", "int64"): libalgos.take_2d_axis0_int64_int64,
+    ("int64", "float64"): libalgos.take_2d_axis0_int64_float64,
+    ("float32", "float32"): libalgos.take_2d_axis0_float32_float32,
+    ("float32", "float64"): libalgos.take_2d_axis0_float32_float64,
+    ("float64", "float64"): libalgos.take_2d_axis0_float64_float64,
+    ("object", "object"): libalgos.take_2d_axis0_object_object,
+    ("bool", "bool"): _view_wrapper(
+        libalgos.take_2d_axis0_bool_bool, np.uint8, np.uint8
+    ),
+    ("bool", "object"): _view_wrapper(
+        libalgos.take_2d_axis0_bool_object, np.uint8, None
+    ),
+    ("datetime64[ns]", "datetime64[ns]"): _view_wrapper(
+        libalgos.take_2d_axis0_int64_int64, np.int64, np.int64, fill_wrap=np.int64
+    ),
+    ("timedelta64[ns]", "timedelta64[ns]"): _view_wrapper(
+        libalgos.take_2d_axis0_int64_int64, np.int64, np.int64, fill_wrap=np.int64
+    ),
+}
+
+_take_2d_axis1_dict = {
+    ("int8", "int8"): libalgos.take_2d_axis1_int8_int8,
+    ("int8", "int32"): libalgos.take_2d_axis1_int8_int32,
+    ("int8", "int64"): libalgos.take_2d_axis1_int8_int64,
+    ("int8", "float64"): libalgos.take_2d_axis1_int8_float64,
+    ("int16", "int16"): libalgos.take_2d_axis1_int16_int16,
+    ("int16", "int32"): libalgos.take_2d_axis1_int16_int32,
+    ("int16", "int64"): libalgos.take_2d_axis1_int16_int64,
+    ("int16", "float64"): libalgos.take_2d_axis1_int16_float64,
+    ("int32", "int32"): libalgos.take_2d_axis1_int32_int32,
+    ("int32", "int64"): libalgos.take_2d_axis1_int32_int64,
+    ("int32", "float64"): libalgos.take_2d_axis1_int32_float64,
+    ("int64", "int64"): libalgos.take_2d_axis1_int64_int64,
+    ("int64", "float64"): libalgos.take_2d_axis1_int64_float64,
+    ("float32", "float32"): libalgos.take_2d_axis1_float32_float32,
+    ("float32", "float64"): libalgos.take_2d_axis1_float32_float64,
+    ("float64", "float64"): libalgos.take_2d_axis1_float64_float64,
+    ("object", "object"): libalgos.take_2d_axis1_object_object,
+    ("bool", "bool"): _view_wrapper(
+        libalgos.take_2d_axis1_bool_bool, np.uint8, np.uint8
+    ),
+    ("bool", "object"): _view_wrapper(
+        libalgos.take_2d_axis1_bool_object, np.uint8, None
+    ),
+    ("datetime64[ns]", "datetime64[ns]"): _view_wrapper(
+        libalgos.take_2d_axis1_int64_int64, np.int64, np.int64, fill_wrap=np.int64
+    ),
+    ("timedelta64[ns]", "timedelta64[ns]"): _view_wrapper(
+        libalgos.take_2d_axis1_int64_int64, np.int64, np.int64, fill_wrap=np.int64
+    ),
+}
+
+_take_2d_multi_dict = {
+    ("int8", "int8"): libalgos.take_2d_multi_int8_int8,
+    ("int8", "int32"): libalgos.take_2d_multi_int8_int32,
+    ("int8", "int64"): libalgos.take_2d_multi_int8_int64,
+    ("int8", "float64"): libalgos.take_2d_multi_int8_float64,
+    ("int16", "int16"): libalgos.take_2d_multi_int16_int16,
+    ("int16", "int32"): libalgos.take_2d_multi_int16_int32,
+    ("int16", "int64"): libalgos.take_2d_multi_int16_int64,
+    ("int16", "float64"): libalgos.take_2d_multi_int16_float64,
+    ("int32", "int32"): libalgos.take_2d_multi_int32_int32,
+    ("int32", "int64"): libalgos.take_2d_multi_int32_int64,
+    ("int32", "float64"): libalgos.take_2d_multi_int32_float64,
+    ("int64", "int64"): libalgos.take_2d_multi_int64_int64,
+    ("int64", "float64"): libalgos.take_2d_multi_int64_float64,
+    ("float32", "float32"): libalgos.take_2d_multi_float32_float32,
+    ("float32", "float64"): libalgos.take_2d_multi_float32_float64,
+    ("float64", "float64"): libalgos.take_2d_multi_float64_float64,
+    ("object", "object"): libalgos.take_2d_multi_object_object,
+    ("bool", "bool"): _view_wrapper(
+        libalgos.take_2d_multi_bool_bool, np.uint8, np.uint8
+    ),
+    ("bool", "object"): _view_wrapper(
+        libalgos.take_2d_multi_bool_object, np.uint8, None
+    ),
+    ("datetime64[ns]", "datetime64[ns]"): _view_wrapper(
+        libalgos.take_2d_multi_int64_int64, np.int64, np.int64, fill_wrap=np.int64
+    ),
+    ("timedelta64[ns]", "timedelta64[ns]"): _view_wrapper(
+        libalgos.take_2d_multi_int64_int64, np.int64, np.int64, fill_wrap=np.int64
+    ),
+}
+
+
+def _take_nd_object(
+    arr: np.ndarray,
+    indexer: npt.NDArray[np.intp],
+    out: np.ndarray,
+    axis: AxisInt,
+    fill_value,
+    mask_info,
+) -> None:
+    if mask_info is not None:
+        mask, needs_masking = mask_info
+    else:
+        mask = indexer == -1
+        needs_masking = mask.any()
+    if arr.dtype != out.dtype:
+        arr = arr.astype(out.dtype)
+    if arr.shape[axis] > 0:
+        arr.take(indexer, axis=axis, out=out)
+    if needs_masking:
+        outindexer = [slice(None)] * arr.ndim
+        outindexer[axis] = mask
+        out[tuple(outindexer)] = fill_value
+
+
+def _take_2d_multi_object(
+    arr: np.ndarray,
+    indexer: tuple[npt.NDArray[np.intp], npt.NDArray[np.intp]],
+    out: np.ndarray,
+    fill_value,
+    mask_info,
+) -> None:
+    # this is not ideal, performance-wise, but it's better than raising
+    # an exception (best to optimize in Cython to avoid getting here)
+    row_idx, col_idx = indexer  # both np.intp
+    if mask_info is not None:
+        (row_mask, col_mask), (row_needs, col_needs) = mask_info
+    else:
+        row_mask = row_idx == -1
+        col_mask = col_idx == -1
+        row_needs = row_mask.any()
+        col_needs = col_mask.any()
+    if fill_value is not None:
+        if row_needs:
+            out[row_mask, :] = fill_value
+        if col_needs:
+            out[:, col_mask] = fill_value
+    for i, u_ in enumerate(row_idx):
+        if u_ != -1:
+            for j, v in enumerate(col_idx):
+                if v != -1:
+                    out[i, j] = arr[u_, v]
+
+
+def _take_preprocess_indexer_and_fill_value(
+    arr: np.ndarray,
+    indexer: npt.NDArray[np.intp],
+    fill_value,
+    allow_fill: bool,
+    mask: npt.NDArray[np.bool_] | None = None,
+):
+    mask_info: tuple[np.ndarray | None, bool] | None = None
+
+    if not allow_fill:
+        dtype, fill_value = arr.dtype, arr.dtype.type()
+        mask_info = None, False
+    else:
+        # check for promotion based on types only (do this first because
+        # it's faster than computing a mask)
+        dtype, fill_value = maybe_promote(arr.dtype, fill_value)
+        if dtype != arr.dtype:
+            # check if promotion is actually required based on indexer
+            if mask is not None:
+                needs_masking = True
+            else:
+                mask = indexer == -1
+                needs_masking = bool(mask.any())
+            mask_info = mask, needs_masking
+            if not needs_masking:
+                # if not, then depromote, set fill_value to dummy
+                # (it won't be used but we don't want the cython code
+                # to crash when trying to cast it to dtype)
+                dtype, fill_value = arr.dtype, arr.dtype.type()
+
+    return dtype, fill_value, mask_info

Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/array_algos/transforms.py

@@ -0,0 +1,50 @@
+"""
+transforms.py is for shape-preserving functions.
+"""
+
+from __future__ import annotations
+
+from typing import TYPE_CHECKING
+
+import numpy as np
+
+if TYPE_CHECKING:
+    from pandas._typing import (
+        AxisInt,
+        Scalar,
+    )
+
+
+def shift(
+    values: np.ndarray, periods: int, axis: AxisInt, fill_value: Scalar
+) -> np.ndarray:
+    new_values = values
+
+    if periods == 0 or values.size == 0:
+        return new_values.copy()
+
+    # make sure array sent to np.roll is c_contiguous
+    f_ordered = values.flags.f_contiguous
+    if f_ordered:
+        new_values = new_values.T
+        axis = new_values.ndim - axis - 1
+
+    if new_values.size:
+        new_values = np.roll(
+            new_values,
+            np.intp(periods),
+            axis=axis,
+        )
+
+    axis_indexer = [slice(None)] * values.ndim
+    if periods > 0:
+        axis_indexer[axis] = slice(None, periods)
+    else:
+        axis_indexer[axis] = slice(periods, None)
+    new_values[tuple(axis_indexer)] = fill_value
+
+    # restore original order
+    if f_ordered:
+        new_values = new_values.T
+
+    return new_values

Scripts_RSCM_sim_growth_n_climate_to_Yield/.venv/lib/python3.10/site-packages/pandas/core/arrays/__init__.py

@@ -0,0 +1,43 @@
+from pandas.core.arrays.arrow import ArrowExtensionArray
+from pandas.core.arrays.base import (
+    ExtensionArray,
+    ExtensionOpsMixin,
+    ExtensionScalarOpsMixin,
+)
+from pandas.core.arrays.boolean import BooleanArray
+from pandas.core.arrays.categorical import Categorical
+from pandas.core.arrays.datetimes import DatetimeArray
+from pandas.core.arrays.floating import FloatingArray
+from pandas.core.arrays.integer import IntegerArray
+from pandas.core.arrays.interval import IntervalArray
+from pandas.core.arrays.masked import BaseMaskedArray
+from pandas.core.arrays.numpy_ import NumpyExtensionArray
+from pandas.core.arrays.period import (
+    PeriodArray,
+    period_array,
+)
+from pandas.core.arrays.sparse import SparseArray
+from pandas.core.arrays.string_ import StringArray
+from pandas.core.arrays.string_arrow import ArrowStringArray
+from pandas.core.arrays.timedeltas import TimedeltaArray
+
+__all__ = [
+    "ArrowExtensionArray",
+    "ExtensionArray",
+    "ExtensionOpsMixin",
+    "ExtensionScalarOpsMixin",
+    "ArrowStringArray",
+    "BaseMaskedArray",
+    "BooleanArray",
+    "Categorical",
+    "DatetimeArray",
+    "FloatingArray",
+    "IntegerArray",
+    "IntervalArray",
+    "NumpyExtensionArray",
+    "PeriodArray",
+    "period_array",
+    "SparseArray",
+    "StringArray",
+    "TimedeltaArray",
+]