[ensembl-dev] DumpMultiAlign.pl Problem
八號風球
panchengtsung at hotmail.com
Mon Aug 20 04:55:46 BST 2012
Dear all,
I used the DumpMultiAlign.pl normally on compara_67 few months ago, but I
failed to fetch it now.
Here is my cmd
perl ensembl-compara/scripts/dumps/DumpMultiAlign.pl --compara_url mysql://
anonymous at ensembldb.ensembl.org:5306/ensembl_compara_67 --species human
--seq_region 2 --seq_region_start 106709742 --seq_region_end 106709769
--seq_region_strand 1 --alignment_type EPO --set_of_species mammals
--restrict --output_format clustalw
But the error occurred,
-------------------- WARNING ----------------------
MSG: human is not a valid species name (check DB and API version)
FILE: Bio/EnsEMBL/Registry.pm LINE: 1187
CALLED BY: Bio/EnsEMBL/Registry.pm LINE: 972
Date (localtime) = Mon Aug 20 11:52:13 2012
Ensembl API version = 69
---------------------------------------------------
-------------------- EXCEPTION --------------------
MSG: Can not find internal name for species 'human'
STACK Bio::EnsEMBL::Registry::get_adaptor
/ensembl/ensembl/modules//Bio/EnsEMBL/Registry.pm:974
STACK toplevel /ensembl/ensembl-compara/scripts/dumps/DumpMultiAlign.pl:453
Date (localtime) = Mon Aug 20 11:52:13 2012
Ensembl API version = 69
---------------------------------------------------
Could anyone help me?
Sincerely,
Thanks,
Fenix
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