[Bioperl-l] bp_extract_feature_seq.pl : --feature CDS error

[Jason Stajich]

We just fixed this - see Ewan's last message.

I think I've committed a cleaner fix to the last one. I think the problem
may have been in InMemoryCache instantiation instead.

-jason

On Thu, 28 Aug 2003, Charles Hauser wrote:

> I updated my bioperl to cvs today and now am unable to extract CDS
> features from a genbank report using the script Using
> bp_extract_feature_seq.pl.
>
>
> using:
>
>  -i foo.gbk --format genbank --feature gene
>
> script returns concatenated fasta data, but ends with:
> Can't call method "isa" on an undefined value at
> /usr/local/src/bioperl/core/Bio/SeqFeatureI.pm line 457, <GEN0> line
> 1781.
>
> line 1781 is the '//'line at the end of the gbk report.
>
>
> Attempting to extract CDS feature seqs  --feature CDS returns no data
> just the error listed above.
>
> Charles
>
>
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--
Jason Stajich
Duke University
jason at cgt.mc.duke.edu