[Biopython-dev] [Bug 1944] Align.Generic adding iterator and more
bugzilla-daemon at portal.open-bio.org
bugzilla-daemon at portal.open-bio.org
Thu Sep 27 13:36:51 EDT 2007
http://bugzilla.open-bio.org/show_bug.cgi?id=1944
biopython-bugzilla at maubp.freeserve.co.uk changed:
What |Removed |Added
----------------------------------------------------------------------------
Attachment #768 is|0 |1
obsolete| |
------- Comment #12 from biopython-bugzilla at maubp.freeserve.co.uk 2007-09-27 13:36 EST -------
Created an attachment (id=770)
--> (http://bugzilla.open-bio.org/attachment.cgi?id=770&action=view)
Replacement Bio/Align/__init__.py (alignment update v5)
This implements a new alignment class which:
* directly subclasses the python list (as a list of SeqRecords)
* should be a fully backwards compatible with Bio.Align.Generic.Alignment
* implements __str__ and __repr__ methods which are useable on large alignment
* allows flexible subscripting using __getitem__
* enforces strict alphabet and length checking in __init__, append, extend,
__add__ and __radd__ (the last two give list like addition)
Provisos from comment 11 still apply.
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