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[Ann Kamyshnikova <akamyshnikova@xxxxxxxxxxxx>]

Checked this on MySQL and MariaDB. In both cases this error does not appear.
Logs of running with MariaDB - http://paste.openstack.org/show/123532/. 
I used Juno and master neutron code also, both works fine.

** Changed in: neutron
       Status: New => Invalid

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https://bugs.launchpad.net/bugs/1384555

Title:
  Openstack Neutron Database error on filling database

Status in OpenStack Neutron (virtual network service):
  Invalid
Status in “neutron” package in Ubuntu:
  New

Bug description:
  On a fresh installation of Juno, it seems that that the database is
  not being populated correctly on a fresh install. This is the output
  of the log (I also demonstrated the DB had no tables to begin with):

  MariaDB [(none)]> use neutron
  Database changed
  MariaDB [neutron]> show tables;
  Empty set (0.00 sec)

  MariaDB [neutron]> quit
  Bye
  root@vm-1:~# neutron-db-manage --config-file /etc/neutron/neutron.conf --config-file /etc/neutron/plugin.ini current
  INFO  [alembic.migration] Context impl MySQLImpl.
  INFO  [alembic.migration] Will assume non-transactional DDL.
  Current revision for mysql://neutron:XXXXX@10.10.10.1/neutron: None
  root@vm-1:~# neutron-db-manage --config-file /etc/neutron/neutron.conf --config-file /etc/neutron/plugin.ini upgrade head
  INFO  [alembic.migration] Context impl MySQLImpl.
  INFO  [alembic.migration] Will assume non-transactional DDL.
  INFO  [alembic.migration] Running upgrade None -> havana, havana_initial
  INFO  [alembic.migration] Running upgrade havana -> e197124d4b9, add unique constraint to members
  INFO  [alembic.migration] Running upgrade e197124d4b9 -> 1fcfc149aca4, Add a unique constraint on (agent_type, host) columns to prevent a race condition when an agent entry is 'upserted'.
  INFO  [alembic.migration] Running upgrade 1fcfc149aca4 -> 50e86cb2637a, nsx_mappings
  INFO  [alembic.migration] Running upgrade 50e86cb2637a -> 1421183d533f, NSX DHCP/metadata support
  INFO  [alembic.migration] Running upgrade 1421183d533f -> 3d3cb89d84ee, nsx_switch_mappings
  INFO  [alembic.migration] Running upgrade 3d3cb89d84ee -> 4ca36cfc898c, nsx_router_mappings
  INFO  [alembic.migration] Running upgrade 4ca36cfc898c -> 27cc183af192, ml2_vnic_type
  INFO  [alembic.migration] Running upgrade 27cc183af192 -> 50d5ba354c23, ml2 binding:vif_details
  INFO  [alembic.migration] Running upgrade 50d5ba354c23 -> 157a5d299379, ml2 binding:profile
  INFO  [alembic.migration] Running upgrade 157a5d299379 -> 3d2585038b95, VMware NSX rebranding
  INFO  [alembic.migration] Running upgrade 3d2585038b95 -> abc88c33f74f, lb stats
  INFO  [alembic.migration] Running upgrade abc88c33f74f -> 1b2580001654, nsx_sec_group_mapping
  INFO  [alembic.migration] Running upgrade 1b2580001654 -> e766b19a3bb, nuage_initial
  INFO  [alembic.migration] Running upgrade e766b19a3bb -> 2eeaf963a447, floatingip_status
  INFO  [alembic.migration] Running upgrade 2eeaf963a447 -> 492a106273f8, Brocade ML2 Mech. Driver
  INFO  [alembic.migration] Running upgrade 492a106273f8 -> 24c7ea5160d7, Cisco CSR VPNaaS
  INFO  [alembic.migration] Running upgrade 24c7ea5160d7 -> 81c553f3776c, bsn_consistencyhashes
  INFO  [alembic.migration] Running upgrade 81c553f3776c -> 117643811bca, nec: delete old ofc mapping tables
  INFO  [alembic.migration] Running upgrade 117643811bca -> 19180cf98af6, nsx_gw_devices
  INFO  [alembic.migration] Running upgrade 19180cf98af6 -> 33dd0a9fa487, embrane_lbaas_driver
  INFO  [alembic.migration] Running upgrade 33dd0a9fa487 -> 2447ad0e9585, Add IPv6 Subnet properties
  INFO  [alembic.migration] Running upgrade 2447ad0e9585 -> 538732fa21e1, NEC Rename quantum_id to neutron_id
  INFO  [alembic.migration] Running upgrade 538732fa21e1 -> 5ac1c354a051, n1kv segment allocs for cisco n1kv plugin
  INFO  [alembic.migration] Running upgrade 5ac1c354a051 -> icehouse, icehouse
  INFO  [alembic.migration] Running upgrade icehouse -> 54f7549a0e5f, set_not_null_peer_address
  INFO  [alembic.migration] Running upgrade 54f7549a0e5f -> 1e5dd1d09b22, set_not_null_fields_lb_stats
  INFO  [alembic.migration] Running upgrade 1e5dd1d09b22 -> b65aa907aec, set_length_of_protocol_field
  INFO  [alembic.migration] Running upgrade b65aa907aec -> 33c3db036fe4, set_length_of_description_field_metering
  INFO  [alembic.migration] Running upgrade 33c3db036fe4 -> 4eca4a84f08a, Remove ML2 Cisco Credentials DB
  INFO  [alembic.migration] Running upgrade 4eca4a84f08a -> d06e871c0d5, set_admin_state_up_not_null_ml2
  INFO  [alembic.migration] Running upgrade d06e871c0d5 -> 6be312499f9, set_not_null_vlan_id_cisco
  INFO  [alembic.migration] Running upgrade 6be312499f9 -> 1b837a7125a9, Cisco APIC Mechanism Driver
  INFO  [alembic.migration] Running upgrade 1b837a7125a9 -> 10cd28e692e9, nuage_extraroute
  INFO  [alembic.migration] Running upgrade 10cd28e692e9 -> 2db5203cb7a9, nuage_floatingip
  INFO  [alembic.migration] Running upgrade 2db5203cb7a9 -> 5446f2a45467, set_server_default
  INFO  [alembic.migration] Running upgrade 5446f2a45467 -> db_healing, Include all tables and make migrations unconditional.
  INFO  [alembic.migration] Context impl MySQLImpl.
  INFO  [alembic.migration] Will assume non-transactional DDL.
  INFO  [alembic.autogenerate.compare] Detected server default on column 'cisco_ml2_apic_epgs.provider'
  INFO  [alembic.autogenerate.compare] Detected removed index 'cisco_n1kv_vlan_allocations_ibfk_1' on 'cisco_n1kv_vlan_allocations'
  INFO  [alembic.autogenerate.compare] Detected server default on column 'cisco_n1kv_vxlan_allocations.allocated'
  INFO  [alembic.autogenerate.compare] Detected removed index 'cisco_n1kv_vxlan_allocations_ibfk_1' on 'cisco_n1kv_vxlan_allocations'
  INFO  [alembic.autogenerate.compare] Detected removed index 'embrane_pool_port_ibfk_2' on 'embrane_pool_port'
  INFO  [alembic.autogenerate.compare] Detected removed index 'firewall_rules_ibfk_1' on 'firewall_rules'
  INFO  [alembic.autogenerate.compare] Detected removed index 'firewalls_ibfk_1' on 'firewalls'
  INFO  [alembic.autogenerate.compare] Detected server default on column 'meteringlabelrules.excluded'
  INFO  [alembic.autogenerate.compare] Detected server default on column 'ml2_port_bindings.host'
  INFO  [alembic.autogenerate.compare] Detected added column 'nuage_routerroutes_mapping.destination'
  INFO  [alembic.autogenerate.compare] Detected added column 'nuage_routerroutes_mapping.nexthop'
  INFO  [alembic.autogenerate.compare] Detected server default on column 'poolmonitorassociations.status'
  INFO  [alembic.autogenerate.compare] Detected added index 'ix_quotas_tenant_id' on '['tenant_id']'
  INFO  [alembic.autogenerate.compare] Detected NULL on column 'tz_network_bindings.phy_uuid'
  INFO  [alembic.autogenerate.compare] Detected NULL on column 'tz_network_bindings.vlan_id'
  INFO  [neutron.db.migration.alembic_migrations.heal_script] Detected removed foreign key u'nuage_floatingip_pool_mapping_ibfk_2' on table u'nuage_floatingip_pool_mapping'
  INFO  [alembic.migration] Running upgrade db_healing -> 3927f7f7c456, L3 extension distributed mode
  INFO  [alembic.migration] Running upgrade 3927f7f7c456 -> 2026156eab2f, L2 models to support DVR
  INFO  [alembic.migration] Running upgrade 2026156eab2f -> 37f322991f59, removing_mapping_tables
  INFO  [alembic.migration] Running upgrade 37f322991f59 -> 31d7f831a591, add constraint for routerid
  Traceback (most recent call last):
    File "/usr/bin/neutron-db-manage", line 10, in <module>
      sys.exit(main())
    File "/usr/lib/python2.7/dist-packages/neutron/db/migration/cli.py", line 173, in main
      CONF.command.func(config, CONF.command.name)
    File "/usr/lib/python2.7/dist-packages/neutron/db/migration/cli.py", line 83, in do_upgrade_downgrade
      do_alembic_command(config, cmd, revision, sql=CONF.command.sql)
    File "/usr/lib/python2.7/dist-packages/neutron/db/migration/cli.py", line 61, in do_alembic_command
      getattr(alembic_command, cmd)(config, *args, **kwargs)
    File "/usr/lib/python2.7/dist-packages/alembic/command.py", line 125, in upgrade
      script.run_env()
    File "/usr/lib/python2.7/dist-packages/alembic/script.py", line 203, in run_env
      util.load_python_file(self.dir, 'env.py')
    File "/usr/lib/python2.7/dist-packages/alembic/util.py", line 212, in load_python_file
      module = load_module_py(module_id, path)
    File "/usr/lib/python2.7/dist-packages/alembic/compat.py", line 58, in load_module_py
      mod = imp.load_source(module_id, path, fp)
    File "/usr/lib/python2.7/dist-packages/neutron/db/migration/alembic_migrations/env.py", line 108, in <module>
      run_migrations_online()
    File "/usr/lib/python2.7/dist-packages/neutron/db/migration/alembic_migrations/env.py", line 100, in run_migrations_online
      context.run_migrations()
    File "<string>", line 7, in run_migrations
    File "/usr/lib/python2.7/dist-packages/alembic/environment.py", line 688, in run_migrations
      self.get_context().run_migrations(**kw)
    File "/usr/lib/python2.7/dist-packages/alembic/migration.py", line 258, in run_migrations
      change(**kw)
    File "/usr/lib/python2.7/dist-packages/neutron/db/migration/alembic_migrations/versions/31d7f831a591_add_constraint_for_routerid.py", line 85, in upgrade
      cols=['router_id', 'l3_agent_id']
    File "<string>", line 7, in create_primary_key
    File "/usr/lib/python2.7/dist-packages/alembic/operations.py", line 518, in create_primary_key
      schema)
    File "/usr/lib/python2.7/dist-packages/alembic/ddl/impl.py", line 135, in add_constraint
      self._exec(schema.AddConstraint(const))
    File "/usr/lib/python2.7/dist-packages/alembic/ddl/impl.py", line 76, in _exec
      conn.execute(construct, *multiparams, **params)
    File "/usr/lib/python2.7/dist-packages/sqlalchemy/engine/base.py", line 729, in execute
      return meth(self, multiparams, params)
    File "/usr/lib/python2.7/dist-packages/sqlalchemy/sql/ddl.py", line 69, in _execute_on_connection
      return connection._execute_ddl(self, multiparams, params)
    File "/usr/lib/python2.7/dist-packages/sqlalchemy/engine/base.py", line 783, in _execute_ddl
      compiled
    File "/usr/lib/python2.7/dist-packages/sqlalchemy/engine/base.py", line 958, in _execute_context
      context)
    File "/usr/lib/python2.7/dist-packages/sqlalchemy/engine/base.py", line 1156, in _handle_dbapi_exception
      util.raise_from_cause(newraise, exc_info)
    File "/usr/lib/python2.7/dist-packages/sqlalchemy/util/compat.py", line 199, in raise_from_cause
      reraise(type(exception), exception, tb=exc_tb)
    File "/usr/lib/python2.7/dist-packages/sqlalchemy/engine/base.py", line 951, in _execute_context
      context)
    File "/usr/lib/python2.7/dist-packages/sqlalchemy/engine/default.py", line 436, in do_execute
      cursor.execute(statement, parameters)
    File "/usr/lib/python2.7/dist-packages/MySQLdb/cursors.py", line 174, in execute
      self.errorhandler(self, exc, value)
    File "/usr/lib/python2.7/dist-packages/MySQLdb/connections.py", line 36, in defaulterrorhandler
      raise errorclass, errorvalue
  sqlalchemy.exc.OperationalError: (OperationalError) (1832, "Cannot change column 'l3_agent_id': used in a foreign key constraint 'routerl3agentbindings_ibfk_1'") 'ALTER TABLE routerl3agentbindings ADD CONSTRAINT pk_routerl3agentbindings PRIMARY KEY (router_id, l3_agent_id)' ()

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