[ensembl-dev] Error connecting to MySQL

Genomeo Dev genomeodev at gmail.com
Fri Dec 13 17:30:46 GMT 2013


Hi all,

I am getting the error below when verifying installation of the Ensembl VM
73 (same error with version 74).

Any suggestions?

Genomeo

ensembl at ensembl:~$ ./verify-installation
DBI connect('host=ensembldb.ensembl.org;port=5306','anonymous',...) failed:
Can't connect to MySQL server on 'ensembldb.ensembl.org' (110) at
/home/ensembl/ensembl-api-folder/ensembl/modules/Bio/EnsEMBL/Registry.pm
line 1607
ERROR: Error detected when connecting to Ensembl!
Cannot find the DBI perl module. Please install this using your package
management system, cpan or cpanm. Please consult
http://www.ensembl.org/info/docs/api/api_installation.html
Cannot seem to contact EnsemblDB at 'ensembldb.ensembl.org' with the
username 'anonymous'. Try running 'ping ensembldb.ensembl.org' or asking
your systems about firewalls against port 5306
================================================================================
If the problem persists please send the following error message to
helpdesk at ensembl.org

-------------------- EXCEPTION --------------------
MSG: Cannot connect to the Ensembl MySQL server at
ensembldb.ensembl.org:5306; check your settings & DBI error message: Can't
connect to MySQL server on 'ensembldb.ensembl.org' (110)
STACK Bio::EnsEMBL::Registry::load_registry_from_db
/home/ensembl/ensembl-api-folder/ensembl/modules/Bio/EnsEMBL/Registry.pm:1607
STACK (eval) ./verify-installation:110
STACK toplevel ./verify-installation:101
Date (localtime)    = Fri Dec 13 15:21:56 2013
Ensembl API version = 73
---------------------------------------------------
================================================================================
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