Hello Syed:
Thanks for your quick response.
I ran your perl code and it went through. There is NO any message including
error.
--- On Thu, 10/21/10, Syed Haider <syed.hai...@oicr.on.ca> wrote:
> From: Syed Haider <syed.hai...@oicr.on.ca>
> Subject: Re: [mart-dev] meta_conf__user__dm' doesn't exist
> To: "suo" <suodongli...@yahoo.com>
> Cc: "mart-dev@ebi.ac.uk" <mart-dev@ebi.ac.uk>
> Date: Thursday, October 21, 2010, 12:03 PM
> Hi Suo,
>
> please execute the following perl code on your machine.
>
> ##############################
> #!/usr/bin/perl
> use strict;
> use DBI;
>
> my $conString =
> "dbi:mysql:database=ensembl_mart_52;host=martdb.ensembl.org;port=5316;user=anonymous";
>
> my $dbh = DBI->connect($conString) or die "Couldn't
> connect to database:
> " . DBI->errstr;
>
> ##############################
>
> let me know what you see,
>
> thanks,
> Syed
>
>
>
> On 21/10/2010 19:28, suo wrote:
> > Hello all:
> >
> > I am installing biomart0.7 on MySQL5 on RHEL5. There
> is some problem when issuing:
> >
> > perl bin/configure.pl -r conf/myRegistry.xml
> >
> > Here is the error message:
> >
> > DBD::mysql::st execute failed: Table
> 'mymart.meta_conf__user__dm' doesn't exist at
> /root/biomart-perl/bin/../lib/BioMart/Configuration/MartDBLocation.pm
> line 210.
> >
> > ERROR something wrong with your registry:
> DBD::mysql::st execute failed: Table
> 'mymart.meta_conf__user__dm' doesn't exist at
> /root/biomart-perl/bin/../lib/BioMart/Configuration/MartDBLocation.pm
> line 210.
> >
> >
> > Here is my myRegistry.xml:
> >
> > <?xml version="1.0" encoding="UTF-8"?>
> > <!DOCTYPE MartRegistry>
> > <MartRegistry>
> >
> > <MartDBLocation
> >
> name
> = "my_mart"
> >
> displayName = "My BioMart
> Database"
> >
> databaseType = "mysql"
> >
> host
> = "127.0.0.1"
> >
> port
> = "3306"
> >
> database =
> "mymart"
> >
> schema =
>
> >
> user
> = "root"
> >
> password =
> "******"
> >
> visible = "1"
> >
> default = ""
> >
> includeDatasets = ""
> >
> martUser = ""
> > />
> > </MartRegistry>
> >
> >
> >
> >
> >
>
