[Bioperl-pipeline] Annotation example error
McWilliam, Sean (LI, Uni of Queensland)
Sean.McWilliam@csiro.au
Fri, 18 Oct 2002 15:59:42 +1000
Hi,
I have been trying to run the example annotation at
http://www.biopipe.org/bioperl-pipeline-run.html
I think I have everything set up as detailed but when I run Xml2db.pl as
follows
perl Xml2Db.pl -dbhost localhost -dbname annotate_pipeline -dbuser *******
-dbpass ****** -p templates/genomic_sequence_annotation.xml
I get the following error message
Using existing db annotate_pipelineReading Data_setup xml :
templates/genomic_sequence_annotation.xml
Doing DBAdaptor and IOHandler setup
Doing Pipeline Flow Setup
Doing Analysis..
Doing Rules
Doing Job Setup...
DBD::mysql::st execute failed: Column 'current' cannot be null at
/usr/local/ensembl/bioperl-pipeline/Bio/Pipeline/SQL/RuleAdaptor.pm line 85,
<STDIN> line 1.
DBD::mysql::st execute failed: Column 'current' cannot be null at
/usr/local/ensembl/bioperl-pipeline/Bio/Pipeline/SQL/RuleAdaptor.pm line 85,
<STDIN> line 1.
Any helpful advice would be greatly appreciated, couldn't find anything in
the archives.
Cheers,
Sean
============================
Sean McWilliam
CSIRO Livestock Industries
Level 3 Gehrmann Labs
Research Road
University of Queensland
St Lucia, 4072
email: sean.mcwilliam@csiro.au
phone: 07 3346 2504
fax: 07 3214 2480
============================