tool shed can't install via admin user

10 Sep 2013


      Hi,
I've just updated my galaxy-central version and I can't use the tool shed
installer via admin user any more. When I click 'Install to Galaxy' it
throws and 500 error.
Could you please verify that? I tried the URL from tool_shed_url in the
browser and it also doesn't open.
Thanks,
Adhemar


10.129.9.38, 10.129.0.1 - - [10/Sep/2013:16:05:59 -0200] "GET
/galaxy/admin_toolshed/prepare_for_install?tool_shed_url=
http://toolshed.g2.bx.psu.edu/&repository_ids=c45d6c51a4fcfc6c&changeset_revisions=bf1c3f9f8282HTTP/1.0"
500 - "
http://toolshed.g2.bx.psu.edu/repository/preview_tools_in_changeset?repository_id=c45d6c51a4fcfc6c&changeset_revision=bf1c3f9f8282"
"Mozilla/5.0 (X11; Linux x86_64) AppleWebKit/537.36 (KHTML, like Gecko)
Chrome/28.0.1500.95 Safari/537.36"
Error - <class 'urllib2.HTTPError'>: HTTP Error 500: Internal Server Error
URL:
https://www.lmb.cnptia.embrapa.br/galaxy/admin_toolshed/prepare_for_install?tool_shed_url=http://toolshed.g2.bx.psu.edu/&repository_ids=c45d6c51a4fcfc6c&changeset_revisions=bf1c3f9f8282
File
'/opt/bioinformatics/share/galaxy20130410/lib/galaxy/web/framework/middleware/error.py',
line 149 in __call__
  app_iter = self.application(environ, sr_checker)
File '/usr/lib/python2.6/site-packages/paste/recursive.py', line 80 in
__call__
  return self.application(environ, start_response)
File
'/opt/bioinformatics/share/galaxy20130410/lib/galaxy/web/framework/middleware/remoteuser.py',
line 91 in __call__
  return self.app( environ, start_response )
File '/usr/lib/python2.6/site-packages/paste/httpexceptions.py', line 633
in __call__
  return self.application(environ, start_response)
File
'/opt/bioinformatics/share/galaxy20130410/lib/galaxy/web/framework/base.py',
line 132 in __call__
  return self.handle_request( environ, start_response )
File
'/opt/bioinformatics/share/galaxy20130410/lib/galaxy/web/framework/base.py',
line 190 in handle_request
  body = method( trans, **kwargs )
File
'/opt/bioinformatics/share/galaxy20130410/lib/galaxy/web/framework/__init__.py',
line 221 in decorator
  return func( self, trans, *args, **kwargs )
File
'/opt/bioinformatics/share/galaxy20130410/lib/galaxy/webapps/galaxy/controllers/admin_toolshed.py',
line 908 in prepare_for_install
  includes_tool_dependencies )
File
'/opt/bioinformatics/share/galaxy20130410/lib/tool_shed/util/common_install_util.py',
line 130 in get_dependencies_for_repository
  all_repo_info_dict = get_required_repo_info_dicts( trans, tool_shed_url,
util.listify( repo_info_dict ) )
File
'/opt/bioinformatics/share/galaxy20130410/lib/tool_shed/util/common_install_util.py',
line 360 in get_required_repo_info_dicts
  response = urllib2.urlopen( request ).read()
File '/usr/lib64/python2.6/urllib2.py', line 126 in urlopen
  return _opener.open(url, data, timeout)
File '/usr/lib64/python2.6/urllib2.py', line 397 in open
  response = meth(req, response)
File '/usr/lib64/python2.6/urllib2.py', line 510 in http_response
  'http', request, response, code, msg, hdrs)
File '/usr/lib64/python2.6/urllib2.py', line 435 in error
  return self._call_chain(*args)
File '/usr/lib64/python2.6/urllib2.py', line 369 in _call_chain
  result = func(*args)
File '/usr/lib64/python2.6/urllib2.py', line 518 in http_error_default
  raise HTTPError(req.get_full_url(), code, msg, hdrs, fp)
HTTPError: HTTP Error 500: Internal Server Error


CGI Variables
-------------
  CONTENT_LENGTH: '0'
  HTTP_ACCEPT:
'text/html,application/xhtml+xml,application/xml;q=0.9,*/*;q=0.8'
  HTTP_ACCEPT_ENCODING: 'gzip,deflate,sdch'
  HTTP_ACCEPT_LANGUAGE: 'pt-BR,pt;q=0.8,en-US;q=0.6,en;q=0.4'
  HTTP_AUTHORIZATION: 'Basic YWRoZW1hcjpDYWxsIG1lIHRoZSBicmVlemUh'
  HTTP_COOKIE:
'galaxysession=c6ca0ddb55be603a7b1853fca2041c148b00044fe9cfda0f39abd5fcb4fe71a0bc3b556f2ab9d86b;
GUEST_LANGUAGE_ID=pt_BR; COOKIE_SUPPORT=true;
JSESSIONID=EC393E44F6CC64AB7CECE0B38408E133'
  HTTP_HOST: 'www.lmb.cnptia.embrapa.br'
  HTTP_REFERER: '
http://toolshed.g2.bx.psu.edu/repository/preview_tools_in_changeset?repository_id=c45d6c51a4fcfc6c&changeset_revision=bf1c3f9f8282
'
  HTTP_REMOTE_USER: 'adhemar@'
  HTTP_USER_AGENT: 'Mozilla/5.0 (X11; Linux x86_64) AppleWebKit/537.36
(KHTML, like Gecko) Chrome/28.0.1500.95 Safari/537.36'
  HTTP_X_URL_SCHEME: 'https'
  PATH_INFO: '/admin_toolshed/prepare_for_install'
  QUERY_STRING: 'tool_shed_url=
http://toolshed.g2.bx.psu.edu/&repository_ids=c45d6c51a4fcfc6c&changeset_revisions=bf1c3f9f8282
'
  REMOTE_ADDR: '10.129.9.38, 10.129.0.1'
  REQUEST_METHOD: 'GET'
  SCRIPT_NAME: '/galaxy'
  SERVER_NAME: 'www.lmb.cnptia.embrapa.br'
  SERVER_PORT: '8080'
  SERVER_PROTOCOL: 'HTTP/1.0'


WSGI Variables
--------------
  application: <paste.recursive.RecursiveMiddleware object at 0x8c58d90>
  is_api_request: False
  original_wsgi.url_scheme: 'http'
  paste.cookies: (<SimpleCookie: COOKIE_SUPPORT='true'
GUEST_LANGUAGE_ID='pt_BR' JSESSIONID='EC393E44F6CC64AB7CECE0B38408E133'
galaxysession='c6ca0ddb55be603a7b1853fca2041c148b00044fe9cfda0f39abd5fcb4fe71a0bc3b556f2ab9d86b'>,
'galaxysession=c6ca0ddb55be603a7b1853fca2041c148b00044fe9cfda0f39abd5fcb4fe71a0bc3b556f2ab9d86b;
GUEST_LANGUAGE_ID=pt_BR; COOKIE_SUPPORT=true;
JSESSIONID=EC393E44F6CC64AB7CECE0B38408E133')
  paste.expected_exceptions: [<class 'paste.httpexceptions.HTTPException'>]
  paste.httpexceptions: <paste.httpexceptions.HTTPExceptionHandler object
at 0x8c58610>
  paste.httpserver.thread_pool: <paste.httpserver.ThreadPool object at
0x22bca10>
  paste.parsed_querystring: ([('tool_shed_url', '
http://toolshed.g2.bx.psu.edu/'), ('repository_ids', 'c45d6c51a4fcfc6c'),
('changeset_revisions', 'bf1c3f9f8282')], 'tool_shed_url=
http://toolshed.g2.bx.psu.edu/&repository_ids=c45d6c51a4fcfc6c&changeset_revisions=bf1c3f9f8282
')
  paste.recursive.forward: <paste.recursive.Forwarder from /galaxy>
  paste.recursive.include: <paste.recursive.Includer from /galaxy>
  paste.recursive.include_app_iter: <paste.recursive.IncluderAppIter from
/galaxy>
  paste.recursive.script_name: '/galaxy'
  paste.throw_errors: True
  request_id: '0743e52a1a4c11e39742e41f13e30314'
  webob._parsed_query_vars: (MultiDict([('tool_shed_url', '
http://toolshed.g2.bx.psu.edu/'), ('repository_ids', 'c45d6c51a4fcfc6c'),
('changeset_revisions', 'bf1c3f9f8282')]), 'tool_shed_url=
http://toolshed.g2.bx.psu.edu/&repository_ids=c45d6c51a4fcfc6c&changeset_revisions=bf1c3f9f8282
')
  wsgi process: 'Multithreaded'
------------------------------------------------------------

Adhemar

Adhemar

Dave Bouvier

Adhemar

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