fastaparser.Writer

Writer for the given FASTA file. Writes FastaSequence objects or tuples of (header, sequence) to the given file.

Parameters

The Writer class can be instantiated with the following parameter

fastaparser.Writer(fasta_file)

Parameter	Type / Value	Default	Description
fasta_file	file object		An opened file handle (for writing). Must be provided

Raises

TypeError:

• If fasta_file is of the wrong type.
• If fasta_file is not a file object, is closed or is not writable.

Attributes

Instances of the Writer class have the following attribute

Attribute	Type / Value	Editable	Description
fasta_file	file object	No	The FASTA file passed as parameter

Methods

Instances of the Writer class have the following methods

writefasta

Writes a single FASTA sequence to the provided file. Open the file with mode 'a' if you want to append sequences to an existing FASTA file.

Writer.writefasta(fasta_sequence)

Parameter	Type / Value	Default	Description
fasta_sequence	FastaSequence or (header: str, sequence: str)		A FASTA sequence is built from the data contained in the provided FastaSequence object or the tuple of (header, sequence). header may contain or not the starting '>'. header can be an empty string. sequence must be a non empty string. Must be provided

Raises

TypeError

• If fasta_sequence is of the wrong type.

writefastas

Writes multiple FASTA sequences to the provided file. Simply calls Writer.writefasta for each object in fasta_sequences. Open the file with mode 'a' if you want to append multiple sequences to an existing FASTA file.

Writer.writefastas(fasta_sequences)

Parameter	Type / Value	Default	Description
fasta_sequence	iterable of FastaSequence or iterable of (header: str, sequence: str)		FASTA sequences are built from the data contained in the provided FastaSequence objects or the tuples of (header, sequence). headers may contain or not the starting '>'. headers can be empty strings. sequences must be non empty strings. Must be provided

Raises

TypeError

• If fasta_sequences is not iterable.

Special Methods

• __repr__