[Biopython-dev] [Bug 2446] Comments in CT tags cause Bio.Sequencing.Ace.ACEParser to fail.

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

http://bugzilla.open-bio.org/show_bug.cgi?id=2446





------- Comment #4 from biopython-bugzilla at maubp.freeserve.co.uk  2008-06-03 05:16 EST -------
As pointed out on the mailing list, the test cases attached to this bug have
disappeared (some expiry issue?).  In the mean time, we could probably just
edit the sole existing test case in Tests/Ace/contig1.ace to add a comment to
an existing CT tag.

Looking at this file, for example edit:

CT{
Contig1 repeat phrap 52 53 555456:555432
This is the forst line of comment for c1
and this the second for c1
}

to become:

CT{
Contig1 repeat phrap 52 53 555456:555432
COMMENT{
This is the first line of comment for c1
and this the second for c1}
}

In the short term, we could either ignore the COMMENT tags within a CT tag, or
just treat them as plain next.  Supporting the nested structure within the
current would require changes to the current Record structure.


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