[BioSQL-l] Re: [Gmod-gbrowse] Re: gbrowse on top of biosql

[Genevieve DeClerck]

Thanks a lot for all the help everyone - especially Marc Logghe for 
#2,3. Summary of what I changed in my conf file and modules to get 
gbrowse working with biosql:

1) changed 'biodbname' tag in db_args definition in .conf file to 
'namespace'

2) replaced line 1682 in Bio/Graphics/Browser.pm with:

my $n = 
$_->display_name.$_->abs_ref.(eval{$_->version}||'').(eval{$_->class}||'');

3) entirely replaced sub 'asString' in Bio/DB/Das/BioSQL/Segment.pm with:

sub asString {
   my $self = shift;
   my $label = $self->display_name;
   my $start = $self->start || '';
   my $stop  = $self->stop  || '';
   return "$label:$start,$stop";
}

-Genevieve