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419 lines
14 KiB
419 lines
14 KiB
from __future__ import annotations
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from typing import (
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Hashable,
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Mapping,
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Sequence,
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)
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import warnings
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import numpy as np
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import pandas._libs.parsers as parsers
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from pandas._typing import (
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ArrayLike,
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DtypeArg,
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DtypeObj,
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ReadCsvBuffer,
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)
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from pandas.errors import DtypeWarning
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from pandas.util._exceptions import find_stack_level
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from pandas.core.dtypes.common import (
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is_categorical_dtype,
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pandas_dtype,
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)
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from pandas.core.dtypes.concat import union_categoricals
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from pandas.core.dtypes.dtypes import ExtensionDtype
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from pandas import (
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Index,
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MultiIndex,
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)
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from pandas.core.indexes.api import ensure_index_from_sequences
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from pandas.io.parsers.base_parser import (
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ParserBase,
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is_index_col,
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)
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class CParserWrapper(ParserBase):
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low_memory: bool
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_reader: parsers.TextReader
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def __init__(self, src: ReadCsvBuffer[str], **kwds):
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super().__init__(kwds)
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self.kwds = kwds
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kwds = kwds.copy()
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self.low_memory = kwds.pop("low_memory", False)
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# #2442
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# error: Cannot determine type of 'index_col'
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kwds["allow_leading_cols"] = (
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self.index_col is not False # type: ignore[has-type]
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)
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# GH20529, validate usecol arg before TextReader
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kwds["usecols"] = self.usecols
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# Have to pass int, would break tests using TextReader directly otherwise :(
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kwds["on_bad_lines"] = self.on_bad_lines.value
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for key in (
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"storage_options",
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"encoding",
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"memory_map",
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"compression",
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"error_bad_lines",
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"warn_bad_lines",
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):
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kwds.pop(key, None)
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kwds["dtype"] = ensure_dtype_objs(kwds.get("dtype", None))
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self._reader = parsers.TextReader(src, **kwds)
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self.unnamed_cols = self._reader.unnamed_cols
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# error: Cannot determine type of 'names'
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passed_names = self.names is None # type: ignore[has-type]
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if self._reader.header is None:
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self.names = None
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else:
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# error: Cannot determine type of 'names'
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# error: Cannot determine type of 'index_names'
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(
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self.names, # type: ignore[has-type]
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self.index_names,
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self.col_names,
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passed_names,
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) = self._extract_multi_indexer_columns(
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self._reader.header,
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self.index_names, # type: ignore[has-type]
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passed_names,
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)
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# error: Cannot determine type of 'names'
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if self.names is None: # type: ignore[has-type]
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if self.prefix:
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# error: Cannot determine type of 'names'
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self.names = [ # type: ignore[has-type]
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f"{self.prefix}{i}" for i in range(self._reader.table_width)
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]
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else:
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# error: Cannot determine type of 'names'
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self.names = list( # type: ignore[has-type]
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range(self._reader.table_width)
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)
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# gh-9755
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#
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# need to set orig_names here first
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# so that proper indexing can be done
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# with _set_noconvert_columns
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#
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# once names has been filtered, we will
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# then set orig_names again to names
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# error: Cannot determine type of 'names'
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self.orig_names = self.names[:] # type: ignore[has-type]
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if self.usecols:
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usecols = self._evaluate_usecols(self.usecols, self.orig_names)
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# GH 14671
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# assert for mypy, orig_names is List or None, None would error in issubset
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assert self.orig_names is not None
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if self.usecols_dtype == "string" and not set(usecols).issubset(
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self.orig_names
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):
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self._validate_usecols_names(usecols, self.orig_names)
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# error: Cannot determine type of 'names'
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if len(self.names) > len(usecols): # type: ignore[has-type]
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# error: Cannot determine type of 'names'
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self.names = [ # type: ignore[has-type]
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n
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# error: Cannot determine type of 'names'
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for i, n in enumerate(self.names) # type: ignore[has-type]
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if (i in usecols or n in usecols)
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]
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# error: Cannot determine type of 'names'
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if len(self.names) < len(usecols): # type: ignore[has-type]
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# error: Cannot determine type of 'names'
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self._validate_usecols_names(
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usecols,
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self.names, # type: ignore[has-type]
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)
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# error: Cannot determine type of 'names'
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self._validate_parse_dates_presence(self.names) # type: ignore[has-type]
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self._set_noconvert_columns()
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# error: Cannot determine type of 'names'
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self.orig_names = self.names # type: ignore[has-type]
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if not self._has_complex_date_col:
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# error: Cannot determine type of 'index_col'
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if self._reader.leading_cols == 0 and is_index_col(
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self.index_col # type: ignore[has-type]
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):
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self._name_processed = True
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(
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index_names,
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# error: Cannot determine type of 'names'
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self.names, # type: ignore[has-type]
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self.index_col,
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) = self._clean_index_names(
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# error: Cannot determine type of 'names'
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self.names, # type: ignore[has-type]
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# error: Cannot determine type of 'index_col'
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self.index_col, # type: ignore[has-type]
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self.unnamed_cols,
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)
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if self.index_names is None:
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self.index_names = index_names
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if self._reader.header is None and not passed_names:
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assert self.index_names is not None
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self.index_names = [None] * len(self.index_names)
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self._implicit_index = self._reader.leading_cols > 0
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def close(self) -> None:
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# close handles opened by C parser
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try:
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self._reader.close()
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except ValueError:
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pass
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def _set_noconvert_columns(self) -> None:
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"""
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Set the columns that should not undergo dtype conversions.
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Currently, any column that is involved with date parsing will not
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undergo such conversions.
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"""
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assert self.orig_names is not None
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# error: Cannot determine type of 'names'
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# much faster than using orig_names.index(x) xref GH#44106
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names_dict = {x: i for i, x in enumerate(self.orig_names)}
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col_indices = [names_dict[x] for x in self.names] # type: ignore[has-type]
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# error: Cannot determine type of 'names'
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noconvert_columns = self._set_noconvert_dtype_columns(
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col_indices,
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self.names, # type: ignore[has-type]
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)
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for col in noconvert_columns:
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self._reader.set_noconvert(col)
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def read(
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self,
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nrows: int | None = None,
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) -> tuple[
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Index | MultiIndex | None,
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Sequence[Hashable] | MultiIndex,
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Mapping[Hashable, ArrayLike],
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]:
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try:
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if self.low_memory:
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chunks = self._reader.read_low_memory(nrows)
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# destructive to chunks
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data = _concatenate_chunks(chunks)
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else:
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data = self._reader.read(nrows)
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except StopIteration:
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if self._first_chunk:
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self._first_chunk = False
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names = self._maybe_dedup_names(self.orig_names)
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index, columns, col_dict = self._get_empty_meta(
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names,
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self.index_col,
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self.index_names,
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dtype=self.kwds.get("dtype"),
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)
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columns = self._maybe_make_multi_index_columns(columns, self.col_names)
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if self.usecols is not None:
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columns = self._filter_usecols(columns)
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col_dict = {k: v for k, v in col_dict.items() if k in columns}
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return index, columns, col_dict
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else:
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self.close()
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raise
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# Done with first read, next time raise StopIteration
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self._first_chunk = False
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# error: Cannot determine type of 'names'
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names = self.names # type: ignore[has-type]
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if self._reader.leading_cols:
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if self._has_complex_date_col:
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raise NotImplementedError("file structure not yet supported")
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# implicit index, no index names
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arrays = []
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for i in range(self._reader.leading_cols):
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if self.index_col is None:
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values = data.pop(i)
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else:
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values = data.pop(self.index_col[i])
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values = self._maybe_parse_dates(values, i, try_parse_dates=True)
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arrays.append(values)
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index = ensure_index_from_sequences(arrays)
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if self.usecols is not None:
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names = self._filter_usecols(names)
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names = self._maybe_dedup_names(names)
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# rename dict keys
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data_tups = sorted(data.items())
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data = {k: v for k, (i, v) in zip(names, data_tups)}
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names, date_data = self._do_date_conversions(names, data)
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else:
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# rename dict keys
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data_tups = sorted(data.items())
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# ugh, mutation
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# assert for mypy, orig_names is List or None, None would error in list(...)
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assert self.orig_names is not None
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names = list(self.orig_names)
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names = self._maybe_dedup_names(names)
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if self.usecols is not None:
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names = self._filter_usecols(names)
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# columns as list
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alldata = [x[1] for x in data_tups]
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if self.usecols is None:
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self._check_data_length(names, alldata)
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data = {k: v for k, (i, v) in zip(names, data_tups)}
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names, date_data = self._do_date_conversions(names, data)
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index, names = self._make_index(date_data, alldata, names)
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# maybe create a mi on the columns
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conv_names = self._maybe_make_multi_index_columns(names, self.col_names)
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return index, conv_names, date_data
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def _filter_usecols(self, names: Sequence[Hashable]) -> Sequence[Hashable]:
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# hackish
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usecols = self._evaluate_usecols(self.usecols, names)
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if usecols is not None and len(names) != len(usecols):
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names = [
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name for i, name in enumerate(names) if i in usecols or name in usecols
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]
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return names
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def _get_index_names(self):
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names = list(self._reader.header[0])
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idx_names = None
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if self._reader.leading_cols == 0 and self.index_col is not None:
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(idx_names, names, self.index_col) = self._clean_index_names(
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names, self.index_col, self.unnamed_cols
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)
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return names, idx_names
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def _maybe_parse_dates(self, values, index: int, try_parse_dates: bool = True):
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if try_parse_dates and self._should_parse_dates(index):
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values = self._date_conv(values)
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return values
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def _concatenate_chunks(chunks: list[dict[int, ArrayLike]]) -> dict:
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"""
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Concatenate chunks of data read with low_memory=True.
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The tricky part is handling Categoricals, where different chunks
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may have different inferred categories.
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"""
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names = list(chunks[0].keys())
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warning_columns = []
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result = {}
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for name in names:
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arrs = [chunk.pop(name) for chunk in chunks]
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# Check each arr for consistent types.
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dtypes = {a.dtype for a in arrs}
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# TODO: shouldn't we exclude all EA dtypes here?
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numpy_dtypes = {x for x in dtypes if not is_categorical_dtype(x)}
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if len(numpy_dtypes) > 1:
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# error: Argument 1 to "find_common_type" has incompatible type
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# "Set[Any]"; expected "Sequence[Union[dtype[Any], None, type,
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# _SupportsDType, str, Union[Tuple[Any, int], Tuple[Any,
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# Union[int, Sequence[int]]], List[Any], _DTypeDict, Tuple[Any, Any]]]]"
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common_type = np.find_common_type(
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numpy_dtypes, # type: ignore[arg-type]
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[],
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)
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if common_type == object:
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warning_columns.append(str(name))
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dtype = dtypes.pop()
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if is_categorical_dtype(dtype):
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result[name] = union_categoricals(arrs, sort_categories=False)
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else:
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if isinstance(dtype, ExtensionDtype):
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# TODO: concat_compat?
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array_type = dtype.construct_array_type()
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# error: Argument 1 to "_concat_same_type" of "ExtensionArray"
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# has incompatible type "List[Union[ExtensionArray, ndarray]]";
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# expected "Sequence[ExtensionArray]"
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result[name] = array_type._concat_same_type(
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arrs # type: ignore[arg-type]
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)
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else:
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# Argument 1 to "concatenate" has incompatible type
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# "List[Union[ExtensionArray, ndarray[Any, Any]]]"; expected
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# "Union[_SupportsArray[dtype[Any]],
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# Sequence[_SupportsArray[dtype[Any]]],
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# Sequence[Sequence[_SupportsArray[dtype[Any]]]],
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# Sequence[Sequence[Sequence[_SupportsArray[dtype[Any]]]]],
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# Sequence[Sequence[Sequence[Sequence[_SupportsArray[dtype[Any]]]]]]]"
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result[name] = np.concatenate(arrs) # type: ignore[arg-type]
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if warning_columns:
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warning_names = ",".join(warning_columns)
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warning_message = " ".join(
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[
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f"Columns ({warning_names}) have mixed types. "
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f"Specify dtype option on import or set low_memory=False."
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]
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)
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warnings.warn(warning_message, DtypeWarning, stacklevel=find_stack_level())
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return result
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def ensure_dtype_objs(
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dtype: DtypeArg | dict[Hashable, DtypeArg] | None
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) -> DtypeObj | dict[Hashable, DtypeObj] | None:
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"""
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Ensure we have either None, a dtype object, or a dictionary mapping to
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dtype objects.
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"""
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if isinstance(dtype, dict):
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return {k: pandas_dtype(dtype[k]) for k in dtype}
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elif dtype is not None:
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return pandas_dtype(dtype)
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return dtype
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