[Bioperl-l] swissprot under mysql

[Chris Mungall]

try

SETENV SQL_TRACE 1

it will show you the offending piece of SQL

On Sat, 24 Aug 2002, David Guzman wrote:

> Hello:
>
> Thanks to Chris Dagdigian and Keith Allen for the information provided in
> this list, allowing me to get to this point...
>
> I am trying to load protein databases under MySQL, I followed up the
> indications appearing in BioTeam.Net HOWTO #1 "MyGENBANK with MySQL"
> but load_seqdatabase.pl script throws me the following error message (3
> seconds later):
>
> #./load_seqdatabase.pl -host localhost -sqldb biosqlsw -dbuser root -dbpass
> <....> -format swiss swissprot40
> /usr/site/databases/seqdb/swissprot/sprot40.dat
> Reading /usr/site/databases/seqdb/swissprot/sprot40.dat
> DBD::mysql::st execute failed: You have an error in your SQL syntax near ')'
> at line 1 at /usr/lib/perl2/site_perl/5.6.1/Bio/DB/SQL/SeqLocationAdaptor.pm
> line 369, <GENO> line 85.
>
> It is a different problem than the one described by Keith Allen, I have
> already adjusted max_allowed_packet, sort_packet and record_buffer to 3M as
> suggested
>
> Any idea???... thanks for your help
>
>
>                                                       David Guzman
> _______________________________________________
> Bioperl-l mailing list
> Bioperl-l@bioperl.org
> http://bioperl.org/mailman/listinfo/bioperl-l
>