def reset_metadata_on_installed_repositories(self, trans, payload, **kwd):
"""
PUT /api/tool_shed_repositories/reset_metadata_on_installed_repositories
Resets all metadata on all repositories installed into Galaxy in an "orderly fashion".
:param key: the API key of the Galaxy admin user.
"""
start_time = strftime("%Y-%m-%d %H:%M:%S")
results = dict(start_time=start_time,
successful_count=0,
unsuccessful_count=0,
repository_status=[])
# Make sure the current user's API key proves he is an admin user in this Galaxy instance.
if not trans.user_is_admin:
raise HTTPForbidden(
detail=
'You are not authorized to reset metadata on repositories installed into this Galaxy instance.'
)
irmm = InstalledRepositoryMetadataManager(self.app)
query = irmm.get_query_for_setting_metadata_on_repositories(
order=False)
# Now reset metadata on all remaining repositories.
for repository in query:
try:
irmm.set_repository(repository)
irmm.reset_all_metadata_on_installed_repository()
irmm_invalid_file_tups = irmm.get_invalid_file_tups()
if irmm_invalid_file_tups:
message = generate_message_for_invalid_tools(
self.app,
irmm_invalid_file_tups,
repository,
None,
as_html=False)
results['unsuccessful_count'] += 1
else:
message = "Successfully reset metadata on repository %s owned by %s" % \
(str(repository.name), str(repository.owner))
results['successful_count'] += 1
except Exception as e:
message = "Error resetting metadata on repository %s owned by %s: %s" % \
(str(repository.name), str(repository.owner), util.unicodify(e))
results['unsuccessful_count'] += 1
results['repository_status'].append(message)
stop_time = strftime("%Y-%m-%d %H:%M:%S")
results['stop_time'] = stop_time
return json.dumps(results, sort_keys=True, indent=4)
def reset_metadata_on_selected_repositories(self, user, **kwd):
"""
Inspect the repository changelog to reset metadata for all appropriate changeset revisions.
This method is called from both Galaxy and the Tool Shed.
"""
repository_ids = util.listify(kwd.get('repository_ids', None))
message = ''
status = 'done'
if repository_ids:
successful_count = 0
unsuccessful_count = 0
for repository_id in repository_ids:
try:
repository = get_installed_tool_shed_repository(
self.app, repository_id)
self.set_repository(repository)
self.reset_all_metadata_on_installed_repository()
if self.invalid_file_tups:
message = generate_message_for_invalid_tools(
self.app,
self.invalid_file_tups,
repository,
None,
as_html=False)
log.debug(message)
unsuccessful_count += 1
else:
log.debug(
"Successfully reset metadata on repository %s owned by %s"
% (str(repository.name), str(repository.owner)))
successful_count += 1
except Exception:
log.exception(
"Error attempting to reset metadata on repository %s",
str(repository.name))
unsuccessful_count += 1
message = "Successfully reset metadata on %d %s. " % \
(successful_count, inflector.cond_plural(successful_count, "repository"))
if unsuccessful_count:
message += "Error setting metadata on %d %s - see the paster log for details. " % \
(unsuccessful_count, inflector.cond_plural(unsuccessful_count, "repository"))
else:
message = 'Select at least one repository to on which to reset all metadata.'
status = 'error'
return message, status