website/archive/binaries/mac/src/globplot/biopython-1.50/Bio/writers/SeqRecord/fasta.py

   1 """Part of an old unused and undocumented sequence writing framework (DEPRECATED)."""
   2 from Bio import Writer
   3
   4 class WriteFasta(Writer.Writer):
   5     def __init__(self, outfile, seqwidth = 72):
   6         Writer.Writer.__init__(self, outfile)
   7         assert seqwidth > 0, seqwidth
   8         self.seqwidth = seqwidth
   9
  10     def write(self, record):
  11         self.outfile.write(">%s %s\n" % (record.id, record.description))
  12         seq = record.seq
  13         assert seq.alphabet.size == 1, "cannot handle alphabet of size %d" % \
  14                seq.alphabet.size
  15         seq = seq.data
  16         seqwidth = self.seqwidth
  17         for i in range(0, len(seq), seqwidth):
  18             self.outfile.write(seq[i:i+seqwidth])
  19             self.outfile.write("\n")
  20
  21 make_writer = WriteFasta