1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/commits/81a2bb351c1a/ Changeset: 81a2bb351c1a User: dannon Date: 2013-06-18 19:16:05 Summary: Remove import_from_myexp method since myexperiment.org uses the standard workflow import now (http://myexperiment.rubyforge.org/svn/trunk/app/views/workflows/galaxy/_run_...) Affected #: 1 file
diff -r fcffbe5a0a4c4e53d4f091df004118613abda807 -r 81a2bb351c1a0f545a1f69b5514a29d96eb4575a lib/galaxy/webapps/galaxy/controllers/workflow.py --- a/lib/galaxy/webapps/galaxy/controllers/workflow.py +++ b/lib/galaxy/webapps/galaxy/controllers/workflow.py @@ -891,56 +891,6 @@
@web.expose @web.require_login( "use workflows" ) - def import_from_myexp( self, trans, myexp_id, **kwd ): - """ - Imports a workflow from the myExperiment website. - Authenticates either by using HTTP basic, or with a cookie. - !!! This isn't currently used. MyExperiment uses the generic import_workflow method !!! - """ - # Parse parameters - myexp_username = kwd.get( 'myexp_username', None ) - myexp_password = kwd.get( 'myexp_password', None ) - myexp_cookie = kwd.get( 'myexp_cookie', None ) - # Get workflow content. - conn = httplib.HTTPConnection( trans.app.config.get( "myexperiment_url", self.__myexp_url ) ) - # NOTE: blocks web thread. - headers = {} - if myexp_username and myexp_password: - auth_header = base64.b64encode( '%s:%s' % ( myexp_username, myexp_password )) - headers = { "Authorization" : "Basic %s" % auth_header } - elif myexp_cookie: - headers = { "Cookie" : "myexperiment_session=%s" % myexp_cookie } - conn.request( "GET", "/workflow.xml?id=%s&elements=content" % myexp_id, headers=headers ) - response = conn.getresponse() - response_data = response.read() - conn.close() - if response.status == 200: - parser = SingleTagContentsParser( "content" ) - parser.feed( response_data ) - workflow_content = base64.b64decode( parser.tag_content ) - # Process workflow JSON and create workflow. - workflow_dict = from_json_string( workflow_content ) - # Create workflow. - workflow, missing_tool_tups = self._workflow_from_dict( trans, workflow_dict, source="myExperiment" ) - workflow = workflow.latest_workflow - if missing_tool_tups: - # TODO: handle the case where the imported workflow requires tools that are not available in - # the local Galaxy instance. - pass - - # Provide user feedback. - workflow_list_str = " <br>Return to <a href='%s'>workflow list." % url_for( controller='workflow', action='list' ) - if response.status != 200: - return trans.show_error_message( "There was a problem importing the workflow. Error: %s %s" % (response_data, workflow_list_str) ) - if workflow.has_errors: - return trans.show_warn_message( "Imported, but some steps in this workflow have validation errors. %s" % workflow_list_str ) - if workflow.has_cycles: - return trans.show_warn_message( "Imported, but this workflow contains cycles. %s" % workflow_list_str ) - else: - return trans.show_message( "Workflow '%s' imported. %s" % (workflow.name, workflow_list_str) ) - - @web.expose - @web.require_login( "use workflows" ) def export_to_myexp( self, trans, id, myexp_username, myexp_password ): """ Exports a workflow to myExperiment website.
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
--
This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.