[Bioperl-l] [Bioperl] LocusLink

[Zayed Albertyn]

Hi

I have been trying to use Bio::SeqIO to parse Locuslink format for
obtaining all RefSeq mRNAs associated with a Locuslink ID.

I receive the following error message when I use the hash_tree method from
Bio:Annotation:
Can't locate object method "each_synonym" via package "Bio::Annotation::OntologyTerm" at OntologyTerm.pm line 187,
<GEN0> line 1.
The strange thing is that it does support the as_text() method and I can
pull values this way yet I would like to store and retrieve the values as
I like in a hash (as described in the Bio:Annotation documentation).

Is there some reason why I cannot access this "each_synonym" method and
how would I obtain the RefSeq entries if I could initialize the hash_tree()
method?

Thanks
Zayed
-----------------------------------------------
From: Zayed Albertyn
Electric Genetics PTY Ltd
Tel: +27 21 959 3645; Mobile: +2782 480 6097
www.egenetics.com