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Issues with bringing the app up with docker

See original GitHub issue

I just wanted to quickly test out the dockerized version of the app and I came across two issues. I solved the first but did not want to invest more time on the other.

First one was an error with postgres:

$ docker logs contextualise_db_1
Error: Database is uninitialized and superuser password is not specified.
       You must specify POSTGRES_PASSWORD to a non-empty value for the
       superuser. For example, "-e POSTGRES_PASSWORD=password" on "docker run".

       You may also use "POSTGRES_HOST_AUTH_METHOD=trust" to allow all
       connections without a password. This is *not* recommended.

       See PostgreSQL documentation about "trust":

That fix was easy, I just added an environment section to the db services in docker-compose.yml:

    image: postgres:alpine
      - "./"
      - "pg_data:/var/lib/postgresql/data"
      - POSTGRES_PASSWORD=postgres

But then upon login in I got another:

[2020-05-11 09:34:24,629] ERROR in app: Exception on /maps/ [GET]
Traceback (most recent call last):
  File "/root/.local/lib/python3.8/site-packages/flask/", line 2447, in wsgi_app
    response = self.full_dispatch_request()
  File "/root/.local/lib/python3.8/site-packages/flask/", line 1952, in full_dispatch_request
    rv = self.handle_user_exception(e)
  File "/root/.local/lib/python3.8/site-packages/flask/", line 1821, in handle_user_exception
    reraise(exc_type, exc_value, tb)
  File "/root/.local/lib/python3.8/site-packages/flask/", line 39, in reraise
    raise value
  File "/root/.local/lib/python3.8/site-packages/flask/", line 1950, in full_dispatch_request
    rv = self.dispatch_request()
  File "/root/.local/lib/python3.8/site-packages/flask/", line 1936, in dispatch_request
    return self.view_functions[rule.endpoint](**req.view_args)
  File "/root/.local/lib/python3.8/site-packages/flask_login/", line 272, in decorated_view
    return func(*args, **kwargs)
  File "/usr/src/app/contextualise/", line 24, in index
    maps = topic_store.get_topic_maps(
  File "/root/.local/lib/python3.8/site-packages/topicdb/core/store/", line 1579, in get_topic_maps
    cursor.execute(sql, (user_identifier,))
  File "/root/.local/lib/python3.8/site-packages/psycopg2/", line 143, in execute
    return super(DictCursor, self).execute(query, vars)
psycopg2.errors.UndefinedTable: relation "topicdb.user_topicmap" does not exist
LINE 13:             JOIN topicdb.user_topicmap ON topicdb.topicmap.i...

As this seems to be more application specific I did not delve any further.

Issue Analytics

  • State:closed
  • Created 3 years ago
  • Comments:5 (5 by maintainers)

github_iconTop GitHub Comments

stratosgearcommented, May 11, 2020

Nothing wrong with the steps I took to fix the errors, there is nothing to improve here. I just listed the steps as a convenience to anyone else that came across the same issue.

stratosgearcommented, May 11, 2020

Yes the new fixes the issue.

Had to:

  • rebuild the docker image and
  • delete the previous docker volume (docker volume rm contextualize_pg_data)

before the changes would take effect, but they did right after I did the above.


Read more comments on GitHub >

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