#
# Licensed to the Apache Software Foundation (ASF) under one or more
# contributor license agreements. See the NOTICE file distributed with
# this work for additional information regarding copyright ownership.
# The ASF licenses this file to You under the Apache License, Version 2.0
# (the "License"); you may not use this file except in compliance with
# the License. You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
#
"""A source and a sink for reading from and writing to text files."""
# pytype: skip-file
from __future__ import absolute_import
import logging
from builtins import object
from builtins import range
from functools import partial
from typing import Optional
from past.builtins import long
from apache_beam.coders import coders
from apache_beam.io import filebasedsink
from apache_beam.io import filebasedsource
from apache_beam.io import iobase
from apache_beam.io.filebasedsource import ReadAllFiles
from apache_beam.io.filesystem import CompressionTypes
from apache_beam.io.iobase import Read
from apache_beam.io.iobase import Write
from apache_beam.transforms import PTransform
from apache_beam.transforms.display import DisplayDataItem
__all__ = [
'ReadFromText',
'ReadFromTextWithFilename',
'ReadAllFromText',
'WriteToText'
]
_LOGGER = logging.getLogger(__name__)
class _TextSource(filebasedsource.FileBasedSource):
r"""A source for reading text files.
Parses a text file as newline-delimited elements. Supports newline delimiters
'\n' and '\r\n.
This implementation only supports reading text encoded using UTF-8 or
ASCII.
"""
DEFAULT_READ_BUFFER_SIZE = 8192
class ReadBuffer(object):
# A buffer that gives the buffered data and next position in the
# buffer that should be read.
def __init__(self, data, position):
self._data = data
self._position = position
@property
def data(self):
return self._data
@data.setter
def data(self, value):
assert isinstance(value, bytes)
self._data = value
@property
def position(self):
return self._position
@position.setter
def position(self, value):
assert isinstance(value, (int, long))
if value > len(self._data):
raise ValueError(
'Cannot set position to %d since it\'s larger than '
'size of data %d.' % (value, len(self._data)))
self._position = value
def reset(self):
self.data = b''
self.position = 0
def __init__(self,
file_pattern,
min_bundle_size,
compression_type,
strip_trailing_newlines,
coder, # type: coders.Coder
buffer_size=DEFAULT_READ_BUFFER_SIZE,
validate=True,
skip_header_lines=0,
header_processor_fns=(None, None)):
"""Initialize a _TextSource
Args:
header_processor_fns (tuple): a tuple of a `header_matcher` function
and a `header_processor` function. The `header_matcher` should
return `True` for all lines at the start of the file that are part
of the file header and `False` otherwise. These header lines will
not be yielded when reading records and instead passed into
`header_processor` to be handled. If `skip_header_lines` and a
`header_matcher` are both provided, the value of `skip_header_lines`
lines will be skipped and the header will be processed from
there.
Raises:
ValueError: if skip_lines is negative.
Please refer to documentation in class `ReadFromText` for the rest
of the arguments.
"""
super(_TextSource, self).__init__(
file_pattern,
min_bundle_size,
compression_type=compression_type,
validate=validate)
self._strip_trailing_newlines = strip_trailing_newlines
self._compression_type = compression_type
self._coder = coder
self._buffer_size = buffer_size
if skip_header_lines < 0:
raise ValueError(
'Cannot skip negative number of header lines: %d' % skip_header_lines)
elif skip_header_lines > 10:
_LOGGER.warning(
'Skipping %d header lines. Skipping large number of header '
'lines might significantly slow down processing.')
self._skip_header_lines = skip_header_lines
self._header_matcher, self._header_processor = header_processor_fns
def display_data(self):
parent_dd = super(_TextSource, self).display_data()
parent_dd['strip_newline'] = DisplayDataItem(
self._strip_trailing_newlines, label='Strip Trailing New Lines')
parent_dd['buffer_size'] = DisplayDataItem(
self._buffer_size, label='Buffer Size')
parent_dd['coder'] = DisplayDataItem(self._coder.__class__, label='Coder')
return parent_dd
def read_records(self, file_name, range_tracker):
start_offset = range_tracker.start_position()
read_buffer = _TextSource.ReadBuffer(b'', 0)
next_record_start_position = -1
def split_points_unclaimed(stop_position):
return (
0 if stop_position <= next_record_start_position else
iobase.RangeTracker.SPLIT_POINTS_UNKNOWN)
range_tracker.set_split_points_unclaimed_callback(split_points_unclaimed)
with self.open_file(file_name) as file_to_read:
position_after_processing_header_lines = (
self._process_header(file_to_read, read_buffer))
start_offset = max(start_offset, position_after_processing_header_lines)
if start_offset > position_after_processing_header_lines:
# Seeking to one position before the start index and ignoring the
# current line. If start_position is at beginning if the line, that line
# belongs to the current bundle, hence ignoring that is incorrect.
# Seeking to one byte before prevents that.
file_to_read.seek(start_offset - 1)
read_buffer.reset()
sep_bounds = self._find_separator_bounds(file_to_read, read_buffer)
if not sep_bounds:
# Could not find a separator after (start_offset - 1). This means that
# none of the records within the file belongs to the current source.
return
_, sep_end = sep_bounds
read_buffer.data = read_buffer.data[sep_end:]
next_record_start_position = start_offset - 1 + sep_end
else:
next_record_start_position = position_after_processing_header_lines
while range_tracker.try_claim(next_record_start_position):
record, num_bytes_to_next_record = self._read_record(file_to_read,
read_buffer)
# For compressed text files that use an unsplittable OffsetRangeTracker
# with infinity as the end position, above 'try_claim()' invocation
# would pass for an empty record at the end of file that is not
# followed by a new line character. Since such a record is at the last
# position of a file, it should not be a part of the considered range.
# We do this check to ignore such records.
if len(record) == 0 and num_bytes_to_next_record < 0: # pylint: disable=len-as-condition
break
# Record separator must be larger than zero bytes.
assert num_bytes_to_next_record != 0
if num_bytes_to_next_record > 0:
next_record_start_position += num_bytes_to_next_record
yield self._coder.decode(record)
if num_bytes_to_next_record < 0:
break
def _process_header(self, file_to_read, read_buffer):
# Returns a tuple containing the position in file after processing header
# records and a list of decoded header lines that match
# 'header_matcher'.
header_lines = []
position = self._skip_lines(
file_to_read, read_buffer,
self._skip_header_lines) if self._skip_header_lines else 0
if self._header_matcher:
while True:
record, num_bytes_to_next_record = self._read_record(file_to_read,
read_buffer)
decoded_line = self._coder.decode(record)
if not self._header_matcher(decoded_line):
# We've read past the header section at this point, so go back a line.
file_to_read.seek(position)
read_buffer.reset()
break
header_lines.append(decoded_line)
if num_bytes_to_next_record < 0:
break
position += num_bytes_to_next_record
if self._header_processor:
self._header_processor(header_lines)
return position
def _find_separator_bounds(self, file_to_read, read_buffer):
# Determines the start and end positions within 'read_buffer.data' of the
# next separator starting from position 'read_buffer.position'.
# Currently supports following separators.
# * '\n'
# * '\r\n'
# This method may increase the size of buffer but it will not decrease the
# size of it.
current_pos = read_buffer.position
while True:
if current_pos >= len(read_buffer.data):
# Ensuring that there are enough bytes to determine if there is a '\n'
# at current_pos.
if not self._try_to_ensure_num_bytes_in_buffer(
file_to_read, read_buffer, current_pos + 1):
return
# Using find() here is more efficient than a linear scan of the byte
# array.
next_lf = read_buffer.data.find(b'\n', current_pos)
if next_lf >= 0:
if next_lf > 0 and read_buffer.data[next_lf - 1:next_lf] == b'\r':
# Found a '\r\n'. Accepting that as the next separator.
return (next_lf - 1, next_lf + 1)
else:
# Found a '\n'. Accepting that as the next separator.
return (next_lf, next_lf + 1)
current_pos = len(read_buffer.data)
def _try_to_ensure_num_bytes_in_buffer(
self, file_to_read, read_buffer, num_bytes):
# Tries to ensure that there are at least num_bytes bytes in the buffer.
# Returns True if this can be fulfilled, returned False if this cannot be
# fulfilled due to reaching EOF.
while len(read_buffer.data) < num_bytes:
read_data = file_to_read.read(self._buffer_size)
if not read_data:
return False
read_buffer.data += read_data
return True
def _skip_lines(self, file_to_read, read_buffer, num_lines):
"""Skip num_lines from file_to_read, return num_lines+1 start position."""
if file_to_read.tell() > 0:
file_to_read.seek(0)
position = 0
for _ in range(num_lines):
_, num_bytes_to_next_record = self._read_record(file_to_read, read_buffer)
if num_bytes_to_next_record < 0:
# We reached end of file. It is OK to just break here
# because subsequent _read_record will return same result.
break
position += num_bytes_to_next_record
return position
def _read_record(self, file_to_read, read_buffer):
# Returns a tuple containing the current_record and number of bytes to the
# next record starting from 'read_buffer.position'. If EOF is
# reached, returns a tuple containing the current record and -1.
if read_buffer.position > self._buffer_size:
# read_buffer is too large. Truncating and adjusting it.
read_buffer.data = read_buffer.data[read_buffer.position:]
read_buffer.position = 0
record_start_position_in_buffer = read_buffer.position
sep_bounds = self._find_separator_bounds(file_to_read, read_buffer)
read_buffer.position = sep_bounds[1] if sep_bounds else len(
read_buffer.data)
if not sep_bounds:
# Reached EOF. Bytes up to the EOF is the next record. Returning '-1' for
# the starting position of the next record.
return (read_buffer.data[record_start_position_in_buffer:], -1)
if self._strip_trailing_newlines:
# Current record should not contain the separator.
return (
read_buffer.data[record_start_position_in_buffer:sep_bounds[0]],
sep_bounds[1] - record_start_position_in_buffer)
else:
# Current record should contain the separator.
return (
read_buffer.data[record_start_position_in_buffer:sep_bounds[1]],
sep_bounds[1] - record_start_position_in_buffer)
class _TextSourceWithFilename(_TextSource):
def read_records(self, file_name, range_tracker):
records = super(_TextSourceWithFilename,
self).read_records(file_name, range_tracker)
for record in records:
yield (file_name, record)
class _TextSink(filebasedsink.FileBasedSink):
"""A sink to a GCS or local text file or files."""
def __init__(self,
file_path_prefix,
file_name_suffix='',
append_trailing_newlines=True,
num_shards=0,
shard_name_template=None,
coder=coders.ToBytesCoder(), # type: coders.Coder
compression_type=CompressionTypes.AUTO,
header=None):
"""Initialize a _TextSink.
Args:
file_path_prefix: The file path to write to. The files written will begin
with this prefix, followed by a shard identifier (see num_shards), and
end in a common extension, if given by file_name_suffix. In most cases,
only this argument is specified and num_shards, shard_name_template, and
file_name_suffix use default values.
file_name_suffix: Suffix for the files written.
append_trailing_newlines: indicate whether this sink should write an
additional newline char after writing each element.
num_shards: The number of files (shards) used for output. If not set, the
service will decide on the optimal number of shards.
Constraining the number of shards is likely to reduce
the performance of a pipeline. Setting this value is not recommended
unless you require a specific number of output files.
shard_name_template: A template string containing placeholders for
the shard number and shard count. When constructing a filename for a
particular shard number, the upper-case letters 'S' and 'N' are
replaced with the 0-padded shard number and shard count respectively.
This argument can be '' in which case it behaves as if num_shards was
set to 1 and only one file will be generated. The default pattern used
is '-SSSSS-of-NNNNN' if None is passed as the shard_name_template.
coder: Coder used to encode each line.
compression_type: Used to handle compressed output files. Typical value
is CompressionTypes.AUTO, in which case the final file path's
extension (as determined by file_path_prefix, file_name_suffix,
num_shards and shard_name_template) will be used to detect the
compression.
header: String to write at beginning of file as a header. If not None and
append_trailing_newlines is set, '\n' will be added.
Returns:
A _TextSink object usable for writing.
"""
super(_TextSink, self).__init__(
file_path_prefix,
file_name_suffix=file_name_suffix,
num_shards=num_shards,
shard_name_template=shard_name_template,
coder=coder,
mime_type='text/plain',
compression_type=compression_type)
self._append_trailing_newlines = append_trailing_newlines
self._header = header
def open(self, temp_path):
file_handle = super(_TextSink, self).open(temp_path)
if self._header is not None:
file_handle.write(coders.ToBytesCoder().encode(self._header))
if self._append_trailing_newlines:
file_handle.write(b'\n')
return file_handle
def display_data(self):
dd_parent = super(_TextSink, self).display_data()
dd_parent['append_newline'] = DisplayDataItem(
self._append_trailing_newlines, label='Append Trailing New Lines')
return dd_parent
def write_encoded_record(self, file_handle, encoded_value):
"""Writes a single encoded record."""
file_handle.write(encoded_value)
if self._append_trailing_newlines:
file_handle.write(b'\n')
def _create_text_source(
file_pattern=None,
min_bundle_size=None,
compression_type=None,
strip_trailing_newlines=None,
coder=None,
skip_header_lines=None):
return _TextSource(
file_pattern=file_pattern,
min_bundle_size=min_bundle_size,
compression_type=compression_type,
strip_trailing_newlines=strip_trailing_newlines,
coder=coder,
validate=False,
skip_header_lines=skip_header_lines)
[docs]class ReadAllFromText(PTransform):
"""A ``PTransform`` for reading a ``PCollection`` of text files.
Reads a ``PCollection`` of text files or file patterns and and produces a
``PCollection`` of strings.
Parses a text file as newline-delimited elements, by default assuming
UTF-8 encoding. Supports newline delimiters '\\n' and '\\r\\n'.
This implementation only supports reading text encoded using UTF-8 or ASCII.
This does not support other encodings such as UTF-16 or UTF-32.
"""
DEFAULT_DESIRED_BUNDLE_SIZE = 64 * 1024 * 1024 # 64MB
def __init__(
self,
min_bundle_size=0,
desired_bundle_size=DEFAULT_DESIRED_BUNDLE_SIZE,
compression_type=CompressionTypes.AUTO,
strip_trailing_newlines=True,
coder=coders.StrUtf8Coder(), # type: coders.Coder
skip_header_lines=0,
**kwargs):
"""Initialize the ``ReadAllFromText`` transform.
Args:
min_bundle_size: Minimum size of bundles that should be generated when
splitting this source into bundles. See ``FileBasedSource`` for more
details.
desired_bundle_size: Desired size of bundles that should be generated when
splitting this source into bundles. See ``FileBasedSource`` for more
details.
compression_type: Used to handle compressed input files. Typical value
is ``CompressionTypes.AUTO``, in which case the underlying file_path's
extension will be used to detect the compression.
strip_trailing_newlines: Indicates whether this source should remove
the newline char in each line it reads before decoding that line.
validate: flag to verify that the files exist during the pipeline
creation time.
skip_header_lines: Number of header lines to skip. Same number is skipped
from each source file. Must be 0 or higher. Large number of skipped
lines might impact performance.
coder: Coder used to decode each line.
"""
super(ReadAllFromText, self).__init__(**kwargs)
source_from_file = partial(
_create_text_source,
min_bundle_size=min_bundle_size,
compression_type=compression_type,
strip_trailing_newlines=strip_trailing_newlines,
coder=coder,
skip_header_lines=skip_header_lines)
self._desired_bundle_size = desired_bundle_size
self._min_bundle_size = min_bundle_size
self._compression_type = compression_type
self._read_all_files = ReadAllFiles(
True,
compression_type,
desired_bundle_size,
min_bundle_size,
source_from_file)
[docs] def expand(self, pvalue):
return pvalue | 'ReadAllFiles' >> self._read_all_files
[docs]class ReadFromText(PTransform):
r"""A :class:`~apache_beam.transforms.ptransform.PTransform` for reading text
files.
Parses a text file as newline-delimited elements, by default assuming
``UTF-8`` encoding. Supports newline delimiters ``\n`` and ``\r\n``.
This implementation only supports reading text encoded using ``UTF-8`` or
``ASCII``.
This does not support other encodings such as ``UTF-16`` or ``UTF-32``.
"""
_source_class = _TextSource
def __init__(
self,
file_pattern=None,
min_bundle_size=0,
compression_type=CompressionTypes.AUTO,
strip_trailing_newlines=True,
coder=coders.StrUtf8Coder(), # type: coders.Coder
validate=True,
skip_header_lines=0,
**kwargs):
"""Initialize the :class:`ReadFromText` transform.
Args:
file_pattern (str): The file path to read from as a local file path or a
GCS ``gs://`` path. The path can contain glob characters
(``*``, ``?``, and ``[...]`` sets).
min_bundle_size (int): Minimum size of bundles that should be generated
when splitting this source into bundles. See
:class:`~apache_beam.io.filebasedsource.FileBasedSource` for more
details.
compression_type (str): Used to handle compressed input files.
Typical value is :attr:`CompressionTypes.AUTO
<apache_beam.io.filesystem.CompressionTypes.AUTO>`, in which case the
underlying file_path's extension will be used to detect the compression.
strip_trailing_newlines (bool): Indicates whether this source should
remove the newline char in each line it reads before decoding that line.
validate (bool): flag to verify that the files exist during the pipeline
creation time.
skip_header_lines (int): Number of header lines to skip. Same number is
skipped from each source file. Must be 0 or higher. Large number of
skipped lines might impact performance.
coder (~apache_beam.coders.coders.Coder): Coder used to decode each line.
"""
super(ReadFromText, self).__init__(**kwargs)
self._source = self._source_class(
file_pattern,
min_bundle_size,
compression_type,
strip_trailing_newlines,
coder,
validate=validate,
skip_header_lines=skip_header_lines)
[docs] def expand(self, pvalue):
return pvalue.pipeline | Read(self._source)
[docs]class ReadFromTextWithFilename(ReadFromText):
r"""A :class:`~apache_beam.io.textio.ReadFromText` for reading text
files returning the name of the file and the content of the file.
This class extend ReadFromText class just setting a different
_source_class attribute.
"""
_source_class = _TextSourceWithFilename
[docs]class WriteToText(PTransform):
"""A :class:`~apache_beam.transforms.ptransform.PTransform` for writing to
text files."""
def __init__(
self,
file_path_prefix, # type: str
file_name_suffix='',
append_trailing_newlines=True,
num_shards=0,
shard_name_template=None, # type: Optional[str]
coder=coders.ToBytesCoder(), # type: coders.Coder
compression_type=CompressionTypes.AUTO,
header=None):
r"""Initialize a :class:`WriteToText` transform.
Args:
file_path_prefix (str): The file path to write to. The files written will
begin with this prefix, followed by a shard identifier (see
**num_shards**), and end in a common extension, if given by
**file_name_suffix**. In most cases, only this argument is specified and
**num_shards**, **shard_name_template**, and **file_name_suffix** use
default values.
file_name_suffix (str): Suffix for the files written.
append_trailing_newlines (bool): indicate whether this sink should write
an additional newline char after writing each element.
num_shards (int): The number of files (shards) used for output.
If not set, the service will decide on the optimal number of shards.
Constraining the number of shards is likely to reduce
the performance of a pipeline. Setting this value is not recommended
unless you require a specific number of output files.
shard_name_template (str): A template string containing placeholders for
the shard number and shard count. Currently only ``''`` and
``'-SSSSS-of-NNNNN'`` are patterns accepted by the service.
When constructing a filename for a particular shard number, the
upper-case letters ``S`` and ``N`` are replaced with the ``0``-padded
shard number and shard count respectively. This argument can be ``''``
in which case it behaves as if num_shards was set to 1 and only one file
will be generated. The default pattern used is ``'-SSSSS-of-NNNNN'``.
coder (~apache_beam.coders.coders.Coder): Coder used to encode each line.
compression_type (str): Used to handle compressed output files.
Typical value is :class:`CompressionTypes.AUTO
<apache_beam.io.filesystem.CompressionTypes.AUTO>`, in which case the
final file path's extension (as determined by **file_path_prefix**,
**file_name_suffix**, **num_shards** and **shard_name_template**) will
be used to detect the compression.
header (str): String to write at beginning of file as a header.
If not :data:`None` and **append_trailing_newlines** is set, ``\n`` will
be added.
"""
self._sink = _TextSink(
file_path_prefix,
file_name_suffix,
append_trailing_newlines,
num_shards,
shard_name_template,
coder,
compression_type,
header)
[docs] def expand(self, pcoll):
return pcoll | Write(self._sink)