> After intensive debugging, we already think we solved a few 
> bugs, namely in the das/biomart.pm module
Almost forgot about this one; these changes are needed as well:
71,75c79,82
< 
<    my $initializer = BioMart::Initializer->new($confPath, 
<                                                INIT_BATCHSIZE, 
<                                                MAX_BATCHSIZE, 
<                                                $includes) 
---
>    my $initializer = BioMart::Initializer->new(registryFile =>
$confPath, 
>                                                init_batchsize =>
INIT_BATCHSIZE, 
>                                                max_batchsize =>
MAX_BATCHSIZE, 
> 

(remark: the line numbers might not be correct, because some extra lines
were added for debugging purposes)

Cheers,
Marc

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