Here's the output of the migration:
galaxy@galaxy2:~/prog/galaxy-2011-12-5$ sh manage_db.sh upgrade
79 -> 80...
Migration script to create tables for disk quotas.
80 -> 81...
Migration script to add a 'tool_version' column to the hda/ldda tables.
81 -> 82...
Migration script to add the tool_shed_repository table.
82 -> 83...
Migration script to add 'prepare_input_files_cmd' column to the task table
and to rename a column.
83 -> 84...
Migration script to add 'ldda_id' column to the
84 -> 85...
Migration script to add 'info' column to the task table.
On Mon, Dec 5, 2011 at 9:11 PM, Nate Coraor <n...@bx.psu.edu> wrote:
> On Dec 5, 2011, at 3:02 PM, Leon Mei wrote:
> > Dear all,
> > Today I upgraded our NBIC server from an older release (fetched on July
> 5th, 2011) to the latest version in galaxy-dist. After execute "hg update"
> and "sh manage_db upgrade" and merge some local configurations, I
> successfully restarted the server. However once I access the server from a
> web browser, Galaxy crashed.
> > Log file complains that some tables don't exist:
> > ==
> > ProgrammingError: (ProgrammingError) (1146, "Table
> 'galaxy.user_quota_association' doesn't exist") u'SELECT
> user_quota_association.id AS user_quota_association_id,
> user_quota_association.user_id AS user_quota_association_user_id,
> user_quota_association.quota_id AS user_quota_association_quota_id,
> user_quota_association.create_time AS user_quota_association_create_time,
> user_quota_association.update_time AS user_quota_association_update_time
> \nFROM user_quota_association \nWHERE %s = user_quota_association.user_id'
> > ==
> > A check in mysql confirms that only the following 3 tables were added
> during the migration from schema 79 to 85:
> > * default_quota_association
> > * quota
> > * tool_shed_repository
> > The following 9 tables are missing:
> > cloud_*, user_quota_association, group_quota_association
> Hi Leon,
> Were there any errors output when you ran mange_db.sh upgrade?
> > Has anyone experienced a similar problem? Any hint on how to solve this
> is highly appreciate!
> > Thanks,
> > Leon
> > --
> > Hailiang (Leon) Mei
> > Netherlands Bioinformatics Center
> > BioAssist NGS Taskforce
> > - https://wiki.nbic.nl/index.php/Next_Generation_Sequencing
> > Skype: leon_mei Mobile: +31 6 41709231
> > ___________________________________________________________
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Hailiang (Leon) Mei
Netherlands Bioinformatics Center
BioAssist NGS Taskforce
Skype: leon_mei Mobile: +31 6 41709231
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