Probably a data problem - the traceback is probably stating that some history or data cannot be located or something, which means that the data in your database is corrupted. On Jun 11, 2010, at 10:59 AM, wenqing zhang wrote:

Hi, thanks for your response.

we changed the database path connection to mysql database in drupal as following database_connection=mysql://tiger:goDB@localhost/mydatabase?unix_socket=/opt/drupal-6.16-0/mysql/tmp/mysql.sock

it starts to run, but when we take a look at it through the web browser(127.0.0.1:8080), the right column (history panel) of galaxy is not work normally, showing error traceback. is it still connection problem, or database broplem?

thanks in advance for your more help.

Subject: Re: [galaxy-dev] help: can't connect to external mysql atabase From: greg@bx.psu.edu Date: Thu, 10 Jun 2010 18:36:26 -0400 CC: galaxy-dev@lists.bx.psu.edu To: wqzhang71@hotmail.com

Hello,

The problem is that the connection string is a URL, it shouldn't have the path to the mysql binary in it (should just be "mysql://tiger:goDB@localhost/mydatabase") Also, Galaxy and drupal are different and unrelated pieces of software, and Galaxy should have its own dedicated database. Galaxy should work with mysql, but we highly recommend postgres.

On Jun 9, 2010, at 6:55 PM, wenqing zhang wrote:

Hi;

the mysql databse is installed inside drupal in local server. the mysql path location is /opt/drupal-6.16-0/mysql/bin/mysql.

when I tried to connect Galaxy to mysql database by modifying database_connection in file universe_wsgi.ini as following database_connection = /opt/drupal-6.16-0/mysql/bin/mysql://tiger:godatabase@localhost/mydatabase I fialed to do it. and ArgumentError: could not parse rfc1738URL from string '/opt/drupal-6.16-0/mysql/bin/mysql://tiger:godatabase@localhost/mydatabase'

someone can help me?

thanks.

The New Busy is not the old busy. Search, chat and e-mail from your inbox. Get started. _______________________________________________ galaxy-dev mailing list galaxy-dev@lists.bx.psu.edu http://lists.bx.psu.edu/listinfo/galaxy-dev

Greg Von Kuster Galaxy Development Team greg@bx.psu.edu

Hotmail has tools for the New Busy. Search, chat and e-mail from your inbox. Learn more.

Greg Von Kuster Galaxy Development Team greg@bx.psu.edu