allpy
changeset 935:19ffcf1ac4a0
Fixed bug in processors: used Block class for reading alignment file.
Until recent changes (introduction of Alignment/Block._append_columns) it
worked out fine. But practically, we used alignment API: we created an empty
object and called append_file on it.
For blocks this resulted in a block that did not know it's alignment.
Recent changes in implementation caused blocks to actually have their own
specific methods besides constructor, and these methods use knowlege of
alignment a block belongs to.
Hence, the previous behaviour was a bug.
| author | Daniil Alexeyevsky <dendik@kodomo.fbb.msu.ru> |
|---|---|
| date | Mon, 28 Nov 2011 18:33:25 +0300 |
| parents | 763eb1b43534 |
| children | 32f4a9db60c6 |
| files | allpy/processors.py |
| diffstat | 1 files changed, 1 insertions(+), 1 deletions(-) [+] |
line diff
1.1 --- a/allpy/processors.py Mon Nov 28 17:27:45 2011 +0300 1.2 +++ b/allpy/processors.py Mon Nov 28 18:33:25 2011 +0300 1.3 @@ -27,7 +27,7 @@ 1.4 infile.close() 1.5 subst_vars = {'infile': infile.name, 'outfile': outfile.name} 1.6 os.system(self.command % subst_vars) 1.7 - Alignment = block.__class__ 1.8 + Alignment = block.types.Alignment 1.9 new_alignment = Alignment().append_file(outfile) 1.10 os.unlink(infile.name) 1.11 os.unlink(outfile.name)