We are not able to reproduce this behavior in any of our test/development
instances. The repository clone url is not stored in the database, but only
the information necessary to provide the various features available for
managing an installed tool shed repository in Galaxy.
If you can reply back with the following information it may help determine the
cause of this issue in your environment.
Was the Galaxy revision you pulled the tip from the Galaxy-dist repository in
bitbucket (what is the result of typing "hg heads" in your Galaxy root
Which version of Homer did you install before you uninstalled it and pulled the
new Galaxy revision?
What is displayed in your Galaxy paster log?
What is the result of executing the following sql manually in your Galaxy
SELECT * FROM tool_shed_repository where name = 'homer';
Greg Von Kuster
On Jan 2, 2013, at 7:04 PM, Franco Caramia wrote:
> Hi list,
> I installed the Homer tool from the main toolshed. Then I uninstalled it and
> made a pull for the new galaxy revision.
> When I tried to re-install Homer I got a HTTP:NOT FOUND error...
> My guess is that the url for the original Homer is stored in the DB (and it
> got changed on the new revision) and is trying to clone it and not finding
> Any ideas on how to fix this? And If this is the case it should be added to
> the bug list....
> This email (including any attachments or links) may contain confidential
> and/or legally privileged information and is intended only to be read or used
> by the addressee. If you are not the intended addressee, any use,
> distribution, disclosure or copying of this email is strictly prohibited.
> Confidentiality and legal privilege attached to this email (including any
> attachments) are not waived or lost by reason of its mistaken delivery to
> you. If you have received this email in error, please delete it and notify us
> immediately by telephone or email. Peter MacCallum Cancer Centre provides no
> guarantee that this transmission is free of virus or that it has not been
> intercepted or altered and will not be liable for any delay in its receipt.
> Please keep all replies on the list by using "reply all"
> in your mail client. To manage your subscriptions to this
> and other Galaxy lists, please use the interface at:
Please keep all replies on the list by using "reply all"
in your mail client. To manage your subscriptions to this
and other Galaxy lists, please use the interface at: