[Bioperl-l] bioperl can't read Y08502

[Ewan Birney]

On Mon, 14 May 2001, Kris Boulez wrote:

> Bioperl can't process an EMBL formatted file containing the entry
> MIATGENB from EMBL (accession number Y08502). One gets errors like
> 
>   -------------------- WARNING ---------------------
>   MSG: unable to parse location successfully out of
>   complement(Y08501:146990..147048), ignoring feature (seqid=MIATGENB)
>   ---------------------------------------------------
>   -------------------- WARNING ---------------------
>   MSG: unable to parse location successfully out of
>   complement(Y08501:143219..143477), ignoring feature (seqid=MIATGENB)
>   ---------------------------------------------------
>   Can't call method "location" on an undefined value at
>   /usr/local/lib/perl5/site_perl/5.005/Bio/SeqIO/FTHelper.pm line 136,
>   <GEN0> chunk 506.
> 
> Removing all features which refer to another entry
> ("complement(Y08501:146990..147048)") solves the problem and makes
> bioperl happy.

Have you tried main trunk. I believe this has been fixed there.

> 
> Kris,
> 
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> 

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