# skbio.io.util.open¶

skbio.io.util.open(file, mode='r', encoding=None, errors=None, newline=None, compression='auto', compresslevel=9)[source]

Convert input into a filehandle.

State: Stable as of 0.4.0.

Supported inputs:

type can read can write source type
file path True True Binary
URL True False Binary
["lines list\n"] True True Text
io.StringIO True True Text
io.BytesIO True True Binary
io.TextIOWrapper True True Text
io.BufferedReader True False Binary
io.BufferedWriter False True Binary
io.BufferedRandom True True Binary
tempfile.TemporaryFile() True True Binary
tempfile.NamedTemporaryFile() True True Binary

Note

When reading a list of unicode (str) lines, the input for newline is used to determine the number of lines in the resulting file handle, not the number of elements in the list. This is to allow composition with file.readlines().

Parameters: file : filepath, url, filehandle, list The input to convert to a filehandle. mode : {‘r’, ‘w’}, optional Whether to return a readable or writable file. Conversely, this does not imply that the returned file will be unwritable or unreadable. To get a binary filehandle set encoding to binary. encoding : str, optional The encoding scheme to use for the file. If set to ‘binary’, no bytes will be translated. Otherwise this matches the behavior of io.open(). errors : str, optional Specifies how encoding and decoding errors are to be handled. This has no effect when encoding is binary (as there can be no errors). Otherwise this matches the behavior of io.open(). newline : {None, “”, ‘\n’, ‘\r\n’, ‘\r’}, optional Matches the behavior of io.open(). compression : {‘auto’, ‘gzip’, ‘bz2’, None}, optional Will compress or decompress file depending on mode. If ‘auto’ then determining the compression of the file will be attempted and the result will be transparently decompressed. ‘auto’ will do nothing when writing. Other legal values will use their respective compression schemes. compression cannot be used with a text source. compresslevel : int (0-9 inclusive), optional The level of compression to use, will be passed to the appropriate compression handler. This is only used when writing. filehandle : io.TextIOBase or io.BufferedReader/Writer When encoding=’binary’ an io.BufferedReader or io.BufferedWriter will be returned depending on mode. Otherwise an implementation of io.TextIOBase will be returned. Note Any underlying resources needed to create filehandle are managed transparently. If file was closeable, garbage collection of filehandle will not close file. Calling close on filehandle will close file. Conversely calling close on file will cause filehandle to reflect a closed state. This does not mean that a flush has occured for filehandle, there may still have been data in its buffer! Additionally, resources may not have been cleaned up properly, so ALWAYS call close on filehandle and NOT on file.