URL option with Sierappy isn't working.

[mbyott]

Commands:
docker run -it --publish=8111:8080 hivdb/sierra dev
sierrapy --url http://localhost:8080/WebApplications/rest/graphql fasta sampleid.fasta

Result from Sierrapy:

0it [00:00, ?it/s]
Traceback (most recent call last):
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/urllib3/connection.py", line 174, in _new_conn
    conn = connection.create_connection(
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/urllib3/util/connection.py", line 95, in create_connection
    raise err
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/urllib3/util/connection.py", line 85, in create_connection
    sock.connect(sa)
ConnectionRefusedError: [Errno 111] Connection refused

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/urllib3/connectionpool.py", line 703, in urlopen
    httplib_response = self._make_request(
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/urllib3/connectionpool.py", line 398, in _make_request
    conn.request(method, url, **httplib_request_kw)
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/urllib3/connection.py", line 244, in request
    super(HTTPConnection, self).request(method, url, body=body, headers=headers)
  File "/home/cloud/miniconda3/lib/python3.8/http/client.py", line 1256, in request
    self._send_request(method, url, body, headers, encode_chunked)
  File "/home/cloud/miniconda3/lib/python3.8/http/client.py", line 1302, in _send_request
    self.endheaders(body, encode_chunked=encode_chunked)
  File "/home/cloud/miniconda3/lib/python3.8/http/client.py", line 1251, in endheaders
    self._send_output(message_body, encode_chunked=encode_chunked)
  File "/home/cloud/miniconda3/lib/python3.8/http/client.py", line 1011, in _send_output
    self.send(msg)
  File "/home/cloud/miniconda3/lib/python3.8/http/client.py", line 951, in send
    self.connect()
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/urllib3/connection.py", line 205, in connect
    conn = self._new_conn()
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/urllib3/connection.py", line 186, in _new_conn
    raise NewConnectionError(
urllib3.exceptions.NewConnectionError: <urllib3.connection.HTTPConnection object at 0x7f5daddea070>: Failed to establish a new connection: [Errno 111] Connection refused

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/requests/adapters.py", line 489, in send
    resp = conn.urlopen(
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/urllib3/connectionpool.py", line 787, in urlopen
    retries = retries.increment(
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/urllib3/util/retry.py", line 592, in increment
    raise MaxRetryError(_pool, url, error or ResponseError(cause))
urllib3.exceptions.MaxRetryError: HTTPConnectionPool(host='localhost', port=8080): Max retries exceeded with url: /WebApplications/rest/graphql (Caused by NewConnectionError('<urllib3.connection.HTTPConnection object at 0x7f5daddea070>: Failed to establish a new connection: [Errno 111] Connection refused'))

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/home/cloud/miniconda3/bin/sierrapy", line 33, in <module>
    sys.exit(load_entry_point('sierrapy', 'console_scripts', 'sierrapy')())
  File "/mnt/f/src/sierrapy/python/sierrapy/cmds.py", line 5, in main
    cli(obj={})
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/click/core.py", line 1130, in __call__
    return self.main(*args, **kwargs)
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/click/core.py", line 1055, in main
    rv = self.invoke(ctx)
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/click/core.py", line 1657, in invoke
    return _process_result(sub_ctx.command.invoke(sub_ctx))
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/click/core.py", line 1404, in invoke
    return ctx.invoke(self.callback, **ctx.params)
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/click/core.py", line 760, in invoke
    return __callback(*args, **kwargs)
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/click/decorators.py", line 26, in new_func
    return f(get_current_context(), *args, **kwargs)
  File "/mnt/f/src/sierrapy/python/sierrapy/commands/fasta.py", line 114, in fasta
    for idx, partial in enumerate(chunked(result, sharding)):
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/more_itertools/recipes.py", line 93, in take
    return list(islice(iterable, n))
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/tqdm/std.py", line 1178, in __iter__
    for obj in iterable:
  File "/mnt/f/src/sierrapy/python/sierrapy/sierraclient.py", line 182, in iter_sequence_analysis
    yield from self._sequence_analysis(partial, query)
  File "/mnt/f/src/sierrapy/python/sierrapy/sierraclient.py", line 93, in _sequence_analysis
    result: Dict[str, Any] = self.execute(
  File "/mnt/f/src/sierrapy/python/sierrapy/sierraclient.py", line 69, in execute
    result: Dict[str, Any] = self.client.execute(
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/gql/client.py", line 403, in execute
    return self.execute_sync(
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/gql/client.py", line 220, in execute_sync
    with self as session:
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/gql/client.py", line 702, in __enter__
    return self.connect_sync()
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/gql/client.py", line 686, in connect_sync
    self.session.fetch_schema()
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/gql/client.py", line 881, in fetch_schema
    execution_result = self.transport.execute(parse(get_introspection_query()))
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/gql/transport/requests.py", line 220, in execute
    response = self.session.request(
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/requests/sessions.py", line 587, in request
    resp = self.send(prep, **send_kwargs)
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/requests/sessions.py", line 701, in send
    r = adapter.send(request, **kwargs)
  File "/home/cloud/miniconda3/lib/python3.8/site-packages/requests/adapters.py", line 565, in send
    raise ConnectionError(e, request=request)
requests.exceptions.ConnectionError: HTTPConnectionPool(host='localhost', port=8080): Max retries exceeded with url: /WebApplications/rest/graphql (Caused by NewConnectionError('<urllib3.connection.HTTPConnection object at 0x7f5daddea070>: Failed to establish a new connection: [Errno 111] Connection refused'))