[Gmod-help] GFF loading script

[Dave Clements]

Hi SoonJoo,

I had hoped to get to this today, but that is not going to happen.  I am
also out of the office until next Tuesday so I am forwarding your question
on to the Schema list.

Dave C.

On Wed, Jun 17, 2009 at 9:14 PM, Yap, Soon <syap at jcvi.org> wrote:

>  Hi,
>
> I've try to load the sample GFF file to my database (running
> gmod_bulk_load_gff3.pl --organism yeast  --gfffile
> /home/soonjoo/Desktop/saccharomyces_cerevisiae.sorted.gff ). But I'm facing
> a problem with the following error message.
>
> DBD::Pg::st execute failed: ERROR:  more than one row returned by a
> subquery used as an expression [for Statement "SELECT indkey FROM
> pg_catalog.pg_index
> WHERE indisprimary=true AND indrelid=(
> SELECT oid FROM pg_catalog.pg_class
> WHERE relname = ?)
> " with ParamValues: 1='genotype'] at
> /usr/local/lib/perl5/site_perl/5.10.0/DBIx/ContextualFetch.pm line 52.
> Compilation failed in require at
> /usr/local/lib/perl5/site_perl/5.10.0/Bio/GMOD/Load.pm line 3.
> BEGIN failed--compilation aborted at
> /usr/local/lib/perl5/site_perl/5.10.0/Bio/GMOD/Load.pm line 3.
>
> I can't figure out what is the problem with the script. Any help would be
> really appreciated.
>
> Thanks and regards
>
> SoonJoo,Yap
>



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