Mac binaries

[jabaws.git] / website / archive / binaries / mac / src / disembl / biopython-1.50 / Bio / writers / SeqRecord / fasta.py

diff --git a/website/archive/binaries/mac/src/disembl/biopython-1.50/Bio/writers/SeqRecord/fasta.py b/website/archive/binaries/mac/src/disembl/biopython-1.50/Bio/writers/SeqRecord/fasta.py
new file mode 100644 (file)
index 0000000..0b48366
--- /dev/null
+++ b/website/archive/binaries/mac/src/disembl/biopython-1.50/Bio/writers/SeqRecord/fasta.py
@@ -0,0 +1,21 @@
+"""Part of an old unused and undocumented sequence writing framework (DEPRECATED)."""
+from Bio import Writer
+
+class WriteFasta(Writer.Writer):
+    def __init__(self, outfile, seqwidth = 72):
+        Writer.Writer.__init__(self, outfile)
+        assert seqwidth > 0, seqwidth
+        self.seqwidth = seqwidth
+        
+    def write(self, record):
+        self.outfile.write(">%s %s\n" % (record.id, record.description))
+        seq = record.seq
+        assert seq.alphabet.size == 1, "cannot handle alphabet of size %d" % \
+               seq.alphabet.size
+        seq = seq.data
+        seqwidth = self.seqwidth
+        for i in range(0, len(seq), seqwidth):
+            self.outfile.write(seq[i:i+seqwidth])
+            self.outfile.write("\n")
+
+make_writer = WriteFasta