[Biopython-dev] [Bug 2760] proposal: enhancement for SeqIO.TabIO

[bugzilla-daemon at portal.open-bio.org]

http://bugzilla.open-bio.org/show_bug.cgi?id=2760


biopython-bugzilla at maubp.freeserve.co.uk changed:

           What    |Removed                     |Added
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           Severity|normal                      |enhancement




------- Comment #2 from biopython-bugzilla at maubp.freeserve.co.uk  2009-02-13 07:46 EST -------
The "tab" format in Bio.SeqIO was explicitly ONLY for simple tab files with two
fields (see Bug 2533).  Perhaps a more helpful error message would be a good
idea.

If there are more than two fields, determining which are the title and sequence
is complicated.  Your code seems to assume these are the first two fields, and
ignores the rest - which may work in some cases.

Do you have some specific examples of tab separated files you want to read in
using Bio.SeqIO?  I am particularly interested in files from other software
packages (not ones you created yourself).


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