[Biopython-dev] [Bug 2419] SeqUtils __init__.py missing complement function (v1.43 and v1.44)

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http://bugzilla.open-bio.org/show_bug.cgi?id=2419





------- Comment #2 from justin.t.riley at gmail.com  2007-12-13 11:09 EST -------
(In reply to comment #1)
> The "complement" and similar functions were removed from Bio.SeqUtils in
> Biopython 1.43 because similar functionality existed in several places in
> Biopython. Apparently, we missed this call to complement in the
> six_frame_translations function. I would like to avoid adding this function
> back to SeqUtils. Instead, we can use the reverse_complement function in
> Bio.Seq, and take its reverse.
> 
> Could you double-check if the revised version of Bio.SeqUtils.__init__.py works
> for you? You can pick it up from here:
> 
> http://cvs.biopython.org/cgi-bin/viewcvs/viewcvs.cgi/*checkout*/biopython/Bio/SeqUtils/__init__.py?rev=1.14&cvsroot=biopython&content-type=text/plain
> 


Michiel, I figured the "solution" I mentioned wasn't the ideal but hey it
worked :D  

The revised __init__.py you linked to works great for me.  Thanks for getting
back to me so quickly with a proper fix.  

I'm thinking of submitting a patch to Gentoo Linux for this in their Biopython
ebuild until your next release.

Thanks again!  ~Justin


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