1.1 --- a/allpy/fileio.py	Fri Jul 15 18:01:31 2011 +0400
     1.2 +++ b/allpy/fileio.py	Fri Jul 15 18:38:01 2011 +0400
     1.3 @@ -40,8 +40,9 @@
     1.4      def read_alignment(self, alignment):
     1.5          """Read alignment from the file."""
     1.6          append_row = alignment.append_row_from_string
     1.7 +        source = getattr(self.file, 'name', '')
     1.8          for name, description, body in self.read_strings():
     1.9 -            append_row(body, name, description, file.name, self.gaps)
    1.10 +            append_row(body, name, description, source, self.gaps)
    1.11  
    1.12  class FastaFile(AlignmentFile):
    1.13      """Fasta parser & writer."""

     2.1 --- a/test/test_base.py	Fri Jul 15 18:01:31 2011 +0400
     2.2 +++ b/test/test_base.py	Fri Jul 15 18:38:01 2011 +0400
     2.3 @@ -116,4 +116,10 @@
     2.4      expect = re.sub('(stdout MSF: 5 Type: N) .*', r'\1', expect)
     2.5      assert expect == got, "Expected:\n%r\nGot:\n%r" % (expect, got)
     2.6  
     2.7 +    o.name = 'whoopie.msf'
     2.8 +    o.seek(0)
     2.9 +    b = p.Alignment().append_file(o, format='msf')
    2.10 +    assert b.rows_as_strings() == ["A-C-D", "TGCGA"]
    2.11 +    assert b.sequences[0].source == o.name
    2.12 +
    2.13  # vim: set et ts=4 sts=4 sw=4: