[ensembl-dev] EnsemblGenomes Can't locate Bio/DB/Taxonomy.pm and GraphViz.pm

[陈岗]

Hi All

*I am building Ensembl Genomes mirror. When start it up, it shows some
error messages about  'Can't locate Bio/DB/Taxonomy.pm and GraphViz.pm'.*

Can't locate Bio/DB/Taxonomy.pm in @INC (@INC contains:
/usr/local/ensembl_fungi/eg-plugins/fungi/modules......................
....................... at
/usr/local/ensembl_fungi/eg-plugins/common/modules/Bio/Species.pm line 102.
BEGIN failed--compilation aborted at
/usr/local/ensembl_fungi/eg-plugins/common/modules/Bio/Species.pm line 102.
Compilation failed in require at (eval 1109) line 1.

Can't locate GraphViz.pm in @INC (@INC contains:
/usr/local/ensembl_fungi/eg-plugins/fungi/modules
............................
........................ at
/usr/local/ensembl_fungi/modules/EnsEMBL/Web/Tools/OntologyVisualisation.pm
line 5.
BEGIN failed--compilation aborted at
/usr/local/ensembl_fungi/modules/EnsEMBL/Web/Tools/OntologyVisualisation.pm
line 5.
Compilation failed in require at (eval 1220) line 1.

*I can see the web page, but cannot get any data. In logs/error.log file,
it contains the following error message.*

-------------------- WARNING ----------------------
MSG: Could not find MetaContainer adaptor in the registry for
Saccharomyces_cerevisiae core
FILE: EnsEMBL/DBSQL/DBAdaptor.pm LINE: 904
CALLED BY: EnsEMBL/DBSQL/CoordSystemAdaptor.pm  LINE: 274
[Wed Feb 22 22:13:53 2012] [error] [client 192.168.30.101]
\n-------------------- EXCEPTION --------------------\nMSG: Could not get
adaptor MetaContainer for Saccharomyces_cerevisiae core\n\nSTACK
Bio::EnsEMBL::DBSQL::DBAdaptor::AUTOLOAD
/usr/local/ensembl_fungi/ensembl/modules/Bio/EnsEMBL/DBSQL/DBAdaptor.pm:909\nSTACK
Bio::EnsEMBL::DBSQL::CoordSystemAdaptor::_cache_mapping_paths
/usr/local/ensembl_fungi/ensembl/modules/Bio/EnsEMBL/DBSQL/CoordSystemAdaptor.pm:274\nSTACK
Bio::EnsEMBL::DBSQL::CoordSystemAdaptor::new
/usr/local/ensembl_fungi/ensembl/modules/Bio/EnsEMBL/DBSQL/CoordSystemAdaptor.pm:213\nSTACK
Bio::EnsEMBL::Registry::get_adaptor
/usr/local/ensembl_fungi/ensembl/modules/Bio/EnsEMBL/Registry.pm:1014\nSTACK
Bio::EnsEMBL::DBSQL::DBAdaptor::AUTOLOAD
/usr/local/ensembl_fungi/ensembl/modules/Bio/EnsEMBL/DBSQL/DBAdaptor.pm:896\nSTACK
EnsEMBL::Web::Factory::Location::_adaptor
/usr/local/ensembl_fungi/modules/EnsEMBL/Web/Factory/Location.pm:48\nSTACK
EnsEMBL::Web::Factory::Location::_coord_system_adaptor
/usr/local/ensembl_fungi/modules/EnsEMBL/Web/Factory/Location.pm:39\nSTACK
EnsEMBL::Web::Factory::Location::__set_species
/usr/local/ensembl_fungi/modules/EnsEMBL/Web/Factory/Location.pm:90\nSTACK
EnsEMBL::Web::Factory::Location::new
/usr/local/ensembl_fungi/modules/EnsEMBL/Web/Factory/Location.pm:20\nSTACK
EnsEMBL::Web::Root::new_module
/usr/local/ensembl_fungi/modules/EnsEMBL/Web/Root.pm:501\nSTACK
EnsEMBL::Web::Root::new_factory
/usr/local/ensembl_fungi/modules/EnsEMBL/Web/Root.pm:491\nSTACK
EnsEMBL::Web::Builder::create_factory
/usr/local/ensembl_fungi/modules/EnsEMBL/Web/Builder.pm:141\nSTACK
EnsEMBL::Web::Builder::create_objects
/usr/local/ensembl_fungi/modules/EnsEMBL/Web/Builder.pm:84\nSTACK
EnsEMBL::Web::Controller::Page::init
/usr/local/ensembl_fungi/modules/EnsEMBL/Web/Controller/Page.pm:27\nSTACK
EnsEMBL::Web::Controller::new
/usr/local/ensembl_fungi/modules/EnsEMBL/Web/Controller.pm:91\nSTACK
EnsEMBL::Web::Apache::SpeciesHandler::handler_species
/usr/local/ensembl_fungi/modules/EnsEMBL/Web/Apache/SpeciesHandler.pm:91\nSTACK
EnsEMBL::Web::Apache::Handlers::handler
/usr/local/ensembl_fungi/modules/EnsEMBL/Web/Apache/Handlers.pm:401\nSTACK
(eval) -e:0\nSTACK toplevel -e:0\nEnsembl API version =
65\n---------------------------------------------------\n, referer:
http://172.16.10.12:8900/Saccharomyces_cerevisiae/Info/Index
daniel at TILSI-1-2:/usr/local/ensembl_fungi$ -------------------- WARNING
----------------------FILE: EnsEMBL/DBSQL/DBAdaptor.pm LINE: 904
--------------------: command not found

*Please give me some help. Thanks million!*

Daniel Chen
-- 
TILSI
Taicang Institute For Life Science Information
Address: A2/162, Renmin South Road, Taicang, 215400, Jiangsu Province,
P.R.China
Phone:（+86）512-82782588
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