[ensembl-dev] Problem with AlignSlice from GenomicAlignBlock

[Marc P. Hoeppner]

Hi,

so I have been trying to create AlignSlices from GenomicAlignBlocks using

my $align_slice_adaptor =
     Bio::EnsEMBL::Registry->get_adaptor("Multi", "compara", "AlignSlice");

my $align_slice =
     $align_slice_adaptor->fetch_by_GenomicAlignBlock($this_block);

However, I receive the following error message

MSG: 7 arguments expected
STACK Bio::EnsEMBL::Mapper::add_map_coordinates 
/home/mh/ensembl/src/ensembl/modules/Bio/EnsEMBL/Mapper.pm:542
STACK Bio::EnsEMBL::Compara::GenomicAlign::get_Mapper 
/home/mh/ensembl/src/ensembl-compara/modules/Bio/EnsEMBL/Compara/GenomicAlign.pm:1489
STACK Bio::EnsEMBL::Compara::AlignSlice::_create_underlying_Slices 
/home/mh/ensembl/src/ensembl-compara/modules/Bio/EnsEMBL/Compara/AlignSlice.pm:938
STACK Bio::EnsEMBL::Compara::AlignSlice::new 
/home/mh/ensembl/src/ensembl-compara/modules/Bio/EnsEMBL/Compara/AlignSlice.pm:318
STACK 
Bio::EnsEMBL::Compara::DBSQL::AlignSliceAdaptor::fetch_by_GenomicAlignBlock 
/home/mh/ensembl/src/ensembl-compara/modules/Bio/EnsEMBL/Compara/DBSQL/AlignSliceAdaptor.pm:314
STACK toplevel /home/mh/scripts/ensembl_align_slice.pl:127
Ensembl API version = 63

Everything up to that point should be fine (I can call functions on the 
genomic_align_block object like '->length') - so I am not sure what's 
wrong there.

I use Ubuntu 11.04 server and tried both a local installation of 
ensembl_compara_63 as well as remote, if that mattes at all. The 
datasets I tried were the 19 vertebrate PECAN alignment as well as 
BLASTZ_NET for human and chimp. The error occurred both with my 1month 
old install of the api as well is with the version currently hosted on 
the ftp server.

/Marc