On Wed, Feb 2, 2011 at 1:27 PM, Peter Cock p.j.a.cock@googlemail.com wrote:

Should I file a bug report?

$ sh manage_db.sh upgrade 72 -> 73...

Migration script to add 'ldda_parent_id' column to the implicitly_converted_dataset_association table.

Adding ldda_parent_id column to implicitly_converted_dataset_association table failed: SQLite does not support ALTER TABLE ADD FOREIGN KEY; see http://www.sqlite.org/lang_altertable.html done

Concerningly, although the upgrade says it fails, it looks like some of it worked:

$ sh manage_db.sh db_version 73

Shouldn't each update step be one big transaction that gets rolled back to leave things in a known state (in this case, schema version 72)?

Peter

Nicki Gray wrote:

Hello

When trying to logout from our local instance of Galaxy I get the error message

"This link may not be followed from within Galaxy."

and cant log out. I see this using Firefox, Chrome and Camino

How do I fix this so I can log out?

Hi Nicki,

Are you using upstream authentication in the proxy server (use_remote_user = True)?

--nate

Thanks, Nicki

Nicki Gray MRC Molecular Haematology Unit 01865 222434

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galaxy-dev mailing list galaxy-dev@lists.bx.psu.edu http://lists.bx.psu.edu/listinfo/galaxy-dev

Nicki Gray wrote:

Hi Nate

In universe_wsgi.ini :

# Use user provided in an upstream server's $REMOTE_USER variable use_remote_user = True

Okay, there's another option in the config file:

remote_user_logout_href

This should be set to a URL which will log your users out of whatever authentication system is being used at your site. Since that's specific to each implementation I am not sure what it should be for your site. For straight HTTP Basic Authentication, it's not actually possible to log out.

--nate

Nicki

On 2 Feb 2011, at 14:31, Nate Coraor wrote:

...

Nicki Gray wrote:

...

Hello

When trying to logout from our local instance of Galaxy I get the error message

"This link may not be followed from within Galaxy."

and cant log out. I see this using Firefox, Chrome and Camino

How do I fix this so I can log out?

Hi Nicki,

Are you using upstream authentication in the proxy server (use_remote_user = True)?

--nate

...

Thanks, Nicki

Nicki Gray MRC Molecular Haematology Unit 01865 222434

...

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galaxy-dev mailing list galaxy-dev@lists.bx.psu.edu http://lists.bx.psu.edu/listinfo/galaxy-dev

On Wed, Feb 2, 2011 at 5:39 PM, Kanwei Li kanwei@gmail.com wrote:

This happens with a lot of the migration scripts... I think as long as you have the new column (I just checked, mine does) it should be fine.

OK, so its basically a harmless warning - I'll ignore it then. Thanks.

Peter