[Gmod-help] GFF loading script

Yap, Soon syap at jcvi.org
Thu Jun 18 00:14:23 EDT 2009


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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