Hi Bjorn,

Thanks for the quick response.

I am running version: 10201:ebe87051fadf, when I updated to the latest version, I was able to start the install of DeepTools. The tool seemed to be installing but when I went to refresh the page, I was greeted with this message: "Initializing repository installation failed". Checking on the progress of the installation with the "monitor installing tool shed repositories" page, shows that most of the repositories are "Installing tool dependencies" (yellow box) or "Installed, missing both tool and repository dependencies" (gray box). This is the case even after ~ two hours.

I am glad to clarify if my description was unclear, or even share the cloud instance.

Thanks in advance for any help!

Cheers,

Mo Heydarian

PhD candidate
The Johns Hopkins School of Medicine
Department of Biological Chemistry
725 Wolfe Street
402 Biophysics

Baltimore, MD 21205

On Tue, Dec 3, 2013 at 1:37 PM, Björn Grüning <bjoern.gruening@pharmazie.uni-freiburg.de> wrote:

Hi Mohammed,

that seems to be a old Tool Shed bug that is already fixed. Which Galaxy
version are you running. Can you update to a more recent version?

Thanks for using Galaxy and deepTools,
Bjoern

> Hello,
> I recently discovered the DeepTools program and have been looking
> forward to using it with Galaxy Cloudman. Today I attempted to load
> DeepTools from the Galaxy tool shed on my freshly started Galaxy
> Cloudman 2.0 instance and got the following error:
>
> Internal Server Error
> Galaxy was unable to sucessfully complete your request
> URL: http://ec2-54-226-209-68.compute-1.amazonaws.com/admin_toolshed/prepare_for_install?tool_shed_url=http://toolshed.g2.bx.psu.edu/&repository_ids=8aa7aee9b90e1791&changeset_revisions=1ee0b1ecf500
> Module galaxy.web.framework.middleware.error:149 in __call__
> >> app_iter = self.application(environ, sr_checker)
> Module paste.recursive:84 in __call__
> >> return self.application(environ, start_response)
> Module paste.httpexceptions:633 in __call__
> >> return self.application(environ, start_response)
> Module galaxy.web.framework.base:132 in __call__
> >> return self.handle_request( environ, start_response )
> Module galaxy.web.framework.base:190 in handle_request
> >> body = method( trans, **kwargs )
> Module galaxy.web.framework:221 in decorator
> >> return func( self, trans, *args, **kwargs )
> Module galaxy.webapps.galaxy.controllers.admin_toolshed:896 in prepare_for_install
> >> common_install_util.get_dependencies_for_repository( trans, tool_shed_url, repo_info_dict,includes_tool_dependencies )
> Module tool_shed.util.common_install_util:84 in get_dependencies_for_repository
> >> installed_rd, missing_rd = get_installed_and_missing_repository_dependencies_for_new_install(trans, repo_info_tuple )
> Module tool_shed.util.common_install_util:190 inget_installed_and_missing_repository_dependencies_for_new_install
> >> tool_shed, name, owner, changeset_revision, prior_installation_required =suc.parse_repository_dependency_tuple( rd_tup )
> Module tool_shed.util.shed_util_common:1106 in parse_repository_dependency_tuple
> >> prior_installation_required = str( prior_installation_required )
> UnboundLocalError: local variable 'prior_installation_required'
> referenced before assignment
>
>
> I got this error when I tried to install either of the three revisions
> of the tool. Am I doing something wrong?
>
>
>
>
> Any guidance is appreciated! Thanks in advance!
>
>
> Cheers,
> Mo Heydarian
>
> PhD candidate
> The Johns Hopkins School of Medicine
> Department of Biological Chemistry
> 725 Wolfe Street
> 402 Biophysics
> Baltimore, MD 21205