skbio.io.registry.IORegistry.read¶

IORegistry.read(file, format=None, into=None, verify=True, **kwargs)[source]¶

Read file as format into an object.

State: Stable as of 0.4.0.

Parameters:

Parameters:	file : openable (filepath, URL, filehandle, etc.) The file to read. Something that is understood by skbio.io.open. format : str, optional The format of the file if known. If None, the format will be inferred from the file. into : type or None, optional The object which will be returned. If None, a generator will be returned. verify : bool, optional When True, will double check the format if provided. kwargs : dict, optional Keyword arguments will be passed to their respective handlers (skbio.io.open and the reader for format)
Returns:	object or generator An instance of into if into is not None else generator
Raises:	ValueError Raised when format and into are both None. UnrecognizedFormatError Raised when a reader could not be found for a given format or the format could not be guessed. FormatIdentificationWarning Raised when verify is True and the sniffer of a format did not agree that file is a member of format ArgumentOverrideWarning Raised when verify is True and a user-supplied argument is overriding the suggestion provided by the sniffer of format.

file : openable (filepath, URL, filehandle, etc.)

The file to read. Something that is understood by skbio.io.open.

format : str, optional

The format of the file if known. If None, the format will be inferred from the file.

into : type or None, optional

The object which will be returned. If None, a generator will be returned.

verify : bool, optional

When True, will double check the format if provided.

kwargs : dict, optional

Keyword arguments will be passed to their respective handlers (skbio.io.open and the reader for format)

Returns:

object or generator

An instance of into if into is not None else generator

Raises:

ValueError

Raised when format and into are both None.

UnrecognizedFormatError

Raised when a reader could not be found for a given format or the format could not be guessed.

FormatIdentificationWarning

Raised when verify is True and the sniffer of a format did not agree that file is a member of format

ArgumentOverrideWarning

Raised when verify is True and a user-supplied argument is overriding the suggestion provided by the sniffer of format.