Merge pull request #5200 from nsoranzo/python3

Fix Python3 compatibility for lib/galaxy/web/

.ci/py3_sources.txt

@@ -27,17 +27,7 @@ lib/galaxy/tools/
 lib/galaxy/tours/
 lib/galaxy/util/
 lib/galaxy/visualization/
-lib/galaxy/web/base/
-lib/galaxy/web/buildapp.py
-lib/galaxy/web/framework/base.py
-lib/galaxy/web/framework/decorators.py
-lib/galaxy/web/framework/helpers/grids.py
-lib/galaxy/web/framework/__init__.py
-lib/galaxy/web/framework/middleware/error.py
-lib/galaxy/web/framework/middleware/static.py
-lib/galaxy/web/framework/middleware/statsd.py
-lib/galaxy/web/framework/webapp.py
-lib/galaxy/web/__init__.py
+lib/galaxy/web/
 lib/galaxy/webapps/galaxy/api/histories.py
 lib/galaxy/webapps/galaxy/api/library_datasets.py
 lib/galaxy/webapps/galaxy/api/tours.py

lib/galaxy/web/framework/middleware/batch.py

@@ -23,10 +23,10 @@
 import json
 import logging
 import re
-from urlparse import urlparse
 
 import routes
 from paste import httpexceptions
+from six.moves.urllib.parse import urlparse
 
 log = logging.getLogger(__name__)
 

lib/galaxy/web/framework/middleware/profile.py

@@ -149,7 +149,7 @@ def get_func_list(stats, sel_list):
         list = stats.fcn_list[:]
         order_message = "Ordered by: " + stats.sort_type
     else:
-        list = stats.stats.keys()
+        list = list(stats.stats.keys())
         order_message = "Random listing order was used"
     # Do the selection and accumulate messages
     select_message = ""

lib/galaxy/web/framework/middleware/remoteuser.py

@@ -192,7 +192,7 @@ def __call__(self, environ, start_response):
             return self.app(environ, start_response)
         else:
             log.debug("Unable to identify user.  %s not found" % self.remote_user_header)
-            for k, v in environ.iteritems():
+            for k, v in environ.items():
                 log.debug("%s = %s", k, v)
 
             title = "Access to Galaxy is denied"

lib/galaxy/web/framework/middleware/translogger.py

@@ -5,9 +5,9 @@
 """
 import logging
 import time
-import urllib
 
 from six import string_types
+from six.moves.urllib.parse import quote
 
 
 class TransLogger(object):
@@ -52,8 +52,8 @@ def __init__(self, application,
 
     def __call__(self, environ, start_response):
         start = time.localtime()
-        req_uri = urllib.quote(environ.get('SCRIPT_NAME', '') +
-                               environ.get('PATH_INFO', ''))
+        req_uri = quote(environ.get('SCRIPT_NAME', '') +
+                        environ.get('PATH_INFO', ''))
         if environ.get('QUERY_STRING'):
             req_uri += '?' + environ['QUERY_STRING']
         method = environ['REQUEST_METHOD']

lib/galaxy/web/security/__init__.py

@@ -98,7 +98,7 @@ def encode_all_ids(self, rval, recursive=False):
                 if recursive and isinstance(v, dict):
                     rval[k] = self.encode_all_ids(v, recursive)
                 elif recursive and isinstance(v, list):
-                    rval[k] = map(lambda el: self.encode_all_ids(el, True), v)
+                    rval[k] = [self.encode_all_ids(el, True) for el in v]
         return rval
 
     def decode_id(self, obj_id, kind=None):

lib/galaxy/web/stack/__init__.py

@@ -370,8 +370,8 @@ def _do_uwsgi_postfork():
 
 
 def _mule_fixup():
-    import urllib2
-    urllib2._opener = None
+    from six.moves.urllib.request import install_opener
+    install_opener(None)
 
 
 if uwsgi:

lib/galaxy/web/stack/transport.py

@@ -76,7 +76,7 @@ def __initialize_locks(self):
         if num < need:
             raise RuntimeError('Need %i uWSGI locks but only %i exist(s): Set `locks = %i` in uWSGI configuration' % (need, num, need - 1))
             sys.exit(1)
-        self._locks.extend(map(lambda x: 'RECV_MSG_FARM_' + x, farms))
+        self._locks.extend(['RECV_MSG_FARM_' + x for x in farms])
         # this would be nice, but in my 2.0.15 uWSGI, the uwsgi module has no set_option function, and I don't know if it'd work even if the function existed as documented
         # if len(self.lock_map) > 1:
         #     uwsgi.set_option('locks', len(self.lock_map))
@@ -136,7 +136,7 @@ def start(self):
             if not uwsgi.in_farm():
                 raise RuntimeError('Mule %s is not in a farm! Set `farm = <pool_name>:%s` in uWSGI configuration'
                                    % (uwsgi.mule_id(),
-                                      ','.join(map(str, range(1, len(filter(lambda x: x.endswith('galaxy/main.py'), self.stack._configured_mules)) + 1)))))
+                                      ','.join(map(str, range(1, len([x for x in self.stack._configured_mules if x.endswith('galaxy/main.py')]) + 1)))))
             elif len(self.stack._farms) > 1:
                 raise RuntimeError('Mule %s is in multiple farms! This configuration is not supported due to locking issues' % uwsgi.mule_id())
             # only mules receive messages so don't bother starting the dispatcher if we're not a mule (although