Bioperl: EMBL format without ID/AC/DE/OS

Keith James
12 Apr 2000 13:40:36 +0100


At the moment the EMBL SeqIO module requires certain things of an EMBL
entry. Some are quite explicit (throws exception if ID is missing),
while others are less so (dies with Perl pattern matching error if DE
and OS are missing).

I'd like to propose that it be a bit less dictatorial about these and
still parse the entry. By all means there should be an optional
warning of missing fields (with the default being to issue warnings).

The reason I suggest this is purely self interest (or rather, in the
interests of our group) as the majority of our entries contain
analytical results which we feed to Artemis. They are always being
cat'ed togther so non-FT fields make things very awkward.

Any objections (philosophical or practical)?



Keith James  --  --
The Sanger Centre, Wellcome Trust Genome Campus, Hinxton, Cambs CB10 1SA
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