MongoCollection.count() and update() are deprecated

Eve doesn't have any counting methods on `current_app.data`, so there is
no one-to-one translation for `cursor.count()` in
`file_storage/__init__.py`. Since the call was only used in a debug log
entry, I just removed it altogether.

I removed `pillar.cli.operations.index_users_rebuild()`, as it was
importing `pillar.api.utils.algolia.algolia_index_user_save` which doesn't
exist any more, so the code was dead anyway.

tests/test_api/test_auth.py

@@ -741,7 +741,7 @@ class UserCreationTest(AbstractPillarTest):
 
         with self.app.test_request_context():
             users_coll = self.app.db().users
-            self.assertEqual(0, users_coll.count())
+            self.assertEqual(0, users_coll.count_documents({}))
 
         self.mock_blenderid_validate_happy()
         token = 'this is my life now'
@@ -749,7 +749,7 @@ class UserCreationTest(AbstractPillarTest):
 
         with self.app.test_request_context():
             users_coll = self.app.db().users
-            self.assertEqual(1, users_coll.count())
+            self.assertEqual(1, users_coll.count_documents({}))
 
             db_user = users_coll.find()[0]
             self.assertEqual(db_user['email'], TEST_EMAIL_ADDRESS)
@@ -760,7 +760,7 @@ class UserCreationTest(AbstractPillarTest):
 
         with self.app.test_request_context():
             users_coll = self.app.db().users
-            self.assertEqual(0, users_coll.count())
+            self.assertEqual(0, users_coll.count_documents({}))
 
         bid_resp = {'status': 'success',
                     'user': {'email': TEST_EMAIL_ADDRESS,
@@ -778,7 +778,7 @@ class UserCreationTest(AbstractPillarTest):
 
         with self.app.test_request_context():
             users_coll = self.app.db().users
-            self.assertEqual(1, users_coll.count())
+            self.assertEqual(1, users_coll.count_documents({}))
 
             db_user = users_coll.find()[0]
             self.assertEqual(db_user['email'], TEST_EMAIL_ADDRESS)
@@ -789,7 +789,7 @@ class UserCreationTest(AbstractPillarTest):
         """Blender ID does not require full name, we do."""
         with self.app.app_context():
             users_coll = self.app.db().users
-            self.assertEqual(0, users_coll.count())
+            self.assertEqual(0, users_coll.count_documents({}))
 
         # First request will create the user, the 2nd request will update.
         self.mock_blenderid_validate_happy()
@@ -818,7 +818,7 @@ class UserCreationTest(AbstractPillarTest):
         self.get('/api/users/me', auth_token=token)
 
         with self.app.app_context():
-            self.assertEqual(1, users_coll.count())
+            self.assertEqual(1, users_coll.count_documents({}))
 
             db_user = users_coll.find()[0]
             self.assertEqual(db_user['email'], TEST_EMAIL_ADDRESS)

tests/test_api/test_comments.py

@@ -81,7 +81,7 @@ class CommentEditTest(AbstractPillarTest):
 
         with self.app.app_context():
             proj_coll = self.app.db('projects')
-            proj_coll.update(
+            proj_coll.update_one(
                 {'_id': self.pid},
                 {'$set': {
                     'node_types': self.project['node_types'],

tests/test_api/test_nodes.py

@@ -690,7 +690,7 @@ class NodesReferencedByProjectTest(AbstractPillarTest):
         self.node_etag = node['_etag']
 
         with self.app.app_context():
-            self.app.db('projects').update(
+            self.app.db('projects').update_one(
                 {'_id': self.pid},
                 {'$set': {
                     'header_node': self.node_id,

tests/test_api/test_organizations.py

@@ -24,13 +24,13 @@ class OrganizationCruTest(AbstractPillarTest):
         self.enter_app_context()
 
         # There should be no organizations to begin with.
-        db = self.app.db('organizations')
-        self.assertEqual(0, db.count())
+        org_coll = self.app.db('organizations')
+        self.assertEqual(0, org_coll.count_documents({}))
 
         admin_uid = self.create_user(24 * 'a')
         org_doc = self.app.org_manager.create_new_org('Хакеры', admin_uid, 25)
 
-        self.assertIsNotNone(db.find_one(org_doc['_id']))
+        self.assertIsNotNone(org_coll.find_one(org_doc['_id']))
         self.assertEqual(bson.ObjectId(24 * 'a'), org_doc['admin_uid'])
         self.assertEqual('Хакеры', org_doc['name'])
         self.assertEqual(25, org_doc['seat_count'])