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Building remotely on Ubuntu_18.04_bioeng49 (buildslave Testing) in workspace /home/cmiss/Jenkins/workspace/12-Labours-API
[WS-CLEANUP] Deleting project workspace...
[WS-CLEANUP] Deferred wipeout is used...
[WS-CLEANUP] Done
The recommended git tool is: NONE
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Cloning the remote Git repository
Cloning repository https://github.com/ABI-Software/12-labours-api.git
 > git init /home/cmiss/Jenkins/workspace/12-Labours-API # timeout=10
Fetching upstream changes from https://github.com/ABI-Software/12-labours-api.git
 > git --version # timeout=10
 > git --version # 'git version 2.25.1'
 > git fetch --tags --force --progress -- https://github.com/ABI-Software/12-labours-api.git +refs/heads/*:refs/remotes/origin/* # timeout=10
 > git config remote.origin.url https://github.com/ABI-Software/12-labours-api.git # timeout=10
 > git config --add remote.origin.fetch +refs/heads/*:refs/remotes/origin/* # timeout=10
Avoid second fetch
 > git rev-parse refs/remotes/origin/dev^{commit} # timeout=10
Checking out Revision a60644391d113696edba764f522c5b42ad254547 (refs/remotes/origin/dev)
 > git config core.sparsecheckout # timeout=10
 > git checkout -f a60644391d113696edba764f522c5b42ad254547 # timeout=10
Commit message: "Merge pull request #14 from david-jianwei-yu/fix-testing"
 > git rev-list --no-walk a60644391d113696edba764f522c5b42ad254547 # timeout=10
[12-Labours-API] $ /bin/sh -xe /tmp/shiningpanda16951116712474775757.sh
+ pwd
+ export PYTHONPATH=/home/cmiss/Jenkins/workspace/12-Labours-API
+ pip install -r requirements.txt
Requirement already satisfied: autopep8==1.6.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from -r requirements.txt (line 1)) (1.6.0)
Requirement already satisfied: fastapi==0.80.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from -r requirements.txt (line 2)) (0.80.0)
Requirement already satisfied: gen3==4.15.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from -r requirements.txt (line 3)) (4.15.0)
Requirement already satisfied: gunicorn==20.1.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from -r requirements.txt (line 4)) (20.1.0)
Requirement already satisfied: python-dotenv==0.20.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from -r requirements.txt (line 5)) (0.20.0)
Requirement already satisfied: python-irodsclient==1.1.4 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from -r requirements.txt (line 6)) (1.1.4)
Requirement already satisfied: sgqlc==16.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from -r requirements.txt (line 7)) (16.0)
Requirement already satisfied: uvicorn==0.18.2 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from -r requirements.txt (line 8)) (0.18.2)
Requirement already satisfied: pycodestyle>=2.8.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from autopep8==1.6.0->-r requirements.txt (line 1)) (2.10.0)
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Requirement already satisfied: pydantic!=1.7,!=1.7.1,!=1.7.2,!=1.7.3,!=1.8,!=1.8.1,<2.0.0,>=1.6.2 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from fastapi==0.80.0->-r requirements.txt (line 2)) (1.10.4)
Requirement already satisfied: starlette==0.19.1 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from fastapi==0.80.0->-r requirements.txt (line 2)) (0.19.1)
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Requirement already satisfied: drsclient<0.3.0,>=0.2.2 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from gen3==4.15.0->-r requirements.txt (line 3)) (0.2.3)
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Requirement already satisfied: pandas<2.0.0,>=1.4.2 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from gen3==4.15.0->-r requirements.txt (line 3)) (1.5.3)
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Requirement already satisfied: requests in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from gen3==4.15.0->-r requirements.txt (line 3)) (2.28.2)
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Requirement already satisfied: dataclasses-json in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from gen3==4.15.0->-r requirements.txt (line 3)) (0.5.7)
Requirement already satisfied: click in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from gen3==4.15.0->-r requirements.txt (line 3)) (7.1.2)
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Requirement already satisfied: PrettyTable>=0.7.2 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from python-irodsclient==1.1.4->-r requirements.txt (line 6)) (3.6.0)
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Requirement already satisfied: six>=1.10.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from python-irodsclient==1.1.4->-r requirements.txt (line 6)) (1.16.0)
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Requirement already satisfied: typing-extensions>=3.10.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from starlette==0.19.1->fastapi==0.80.0->-r requirements.txt (line 2)) (4.4.0)
Requirement already satisfied: anyio<5,>=3.4.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from starlette==0.19.1->fastapi==0.80.0->-r requirements.txt (line 2)) (3.6.2)
Requirement already satisfied: asyncio<4.0.0,>=3.4.3 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from drsclient<0.3.0,>=0.2.2->gen3==4.15.0->-r requirements.txt (line 3)) (3.4.3)
Requirement already satisfied: certifi in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from httpx->gen3==4.15.0->-r requirements.txt (line 3)) (2022.12.7)
Requirement already satisfied: httpcore<0.17.0,>=0.15.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from httpx->gen3==4.15.0->-r requirements.txt (line 3)) (0.16.3)
Requirement already satisfied: rfc3986[idna2008]<2,>=1.3 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from httpx->gen3==4.15.0->-r requirements.txt (line 3)) (1.5.0)
Requirement already satisfied: sniffio in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from httpx->gen3==4.15.0->-r requirements.txt (line 3)) (1.3.0)
Requirement already satisfied: pytz>=2020.1 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pandas<2.0.0,>=1.4.2->gen3==4.15.0->-r requirements.txt (line 3)) (2022.7.1)
Requirement already satisfied: numpy>=1.20.3 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pandas<2.0.0,>=1.4.2->gen3==4.15.0->-r requirements.txt (line 3)) (1.24.1)
Requirement already satisfied: wcwidth in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from PrettyTable>=0.7.2->python-irodsclient==1.1.4->-r requirements.txt (line 6)) (0.2.6)
Requirement already satisfied: gdcdictionary<2.0.0,>=1.2.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pypfb<1.0.0->gen3==4.15.0->-r requirements.txt (line 3)) (1.2.0)
Requirement already satisfied: python-json-logger<0.2.0,>=0.1.11 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pypfb<1.0.0->gen3==4.15.0->-r requirements.txt (line 3)) (0.1.11)
Requirement already satisfied: fastavro<=1.4.1 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pypfb<1.0.0->gen3==4.15.0->-r requirements.txt (line 3)) (1.4.1)
Requirement already satisfied: dictionaryutils<4.0.0,>=3.4.3 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pypfb<1.0.0->gen3==4.15.0->-r requirements.txt (line 3)) (3.4.4)
Requirement already satisfied: importlib_metadata<2.0.0,>=1.3.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pypfb<1.0.0->gen3==4.15.0->-r requirements.txt (line 3)) (1.7.0)
Requirement already satisfied: PyYAML<6.0.0,>=5.3.1 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pypfb<1.0.0->gen3==4.15.0->-r requirements.txt (line 3)) (5.4.1)
Requirement already satisfied: multidict<7.0,>=4.5 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from aiohttp->gen3==4.15.0->-r requirements.txt (line 3)) (6.0.4)
Requirement already satisfied: yarl<2.0,>=1.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from aiohttp->gen3==4.15.0->-r requirements.txt (line 3)) (1.8.2)
Requirement already satisfied: aiosignal>=1.1.2 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from aiohttp->gen3==4.15.0->-r requirements.txt (line 3)) (1.3.1)
Requirement already satisfied: attrs>=17.3.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from aiohttp->gen3==4.15.0->-r requirements.txt (line 3)) (22.2.0)
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Requirement already satisfied: idna<4,>=2.5 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from requests->gen3==4.15.0->-r requirements.txt (line 3)) (3.4)
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Requirement already satisfied: typing-inspect>=0.4.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from dataclasses-json->gen3==4.15.0->-r requirements.txt (line 3)) (0.8.0)
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Requirement already satisfied: marshmallow<4.0.0,>=3.3.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from dataclasses-json->gen3==4.15.0->-r requirements.txt (line 3)) (3.19.0)
Requirement already satisfied: pyrsistent>=0.14.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from jsonschema->gen3==4.15.0->-r requirements.txt (line 3)) (0.19.3)
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Requirement already satisfied: packaging>=17.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from marshmallow<4.0.0,>=3.3.0->dataclasses-json->gen3==4.15.0->-r requirements.txt (line 3)) (23.0)
Requirement already satisfied: mypy-extensions>=0.3.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from typing-inspect>=0.4.0->dataclasses-json->gen3==4.15.0->-r requirements.txt (line 3)) (0.4.3)

[notice] A new release of pip available: 22.3.1 -> 23.0
[notice] To update, run: pip install --upgrade pip
+ pip install -r requirements-dev.txt
Requirement already satisfied: pytest==7.1.2 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from -r requirements-dev.txt (line 1)) (7.1.2)
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Requirement already satisfied: packaging in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pytest==7.1.2->-r requirements-dev.txt (line 1)) (23.0)
Requirement already satisfied: iniconfig in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pytest==7.1.2->-r requirements-dev.txt (line 1)) (2.0.0)
Requirement already satisfied: attrs>=19.2.0 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pytest==7.1.2->-r requirements-dev.txt (line 1)) (22.2.0)
Requirement already satisfied: py>=1.8.2 in /home/cmiss/Jenkins/shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pytest==7.1.2->-r requirements-dev.txt (line 1)) (1.11.0)

[notice] A new release of pip available: 22.3.1 -> 23.0
[notice] To update, run: pip install --upgrade pip
+ pytest
============================= test session starts ==============================
platform linux -- Python 3.9.16, pytest-7.1.2, pluggy-1.0.0
rootdir: /home/cmiss/Jenkins/workspace/12-Labours-API
plugins: anyio-3.6.2
collected 12 items

tests/test_api.py FFFFFFF.F...                                           [100%]

=================================== FAILURES ===================================
____________________________ test_get_gen3_program _____________________________

client = <starlette.testclient.TestClient object at 0x7f2b6bdd3bb0>

    def test_get_gen3_program(client):
        response = client.get("/program")
        result = response.json()
>       assert response.status_code == 200
E       assert 404 == 200
E        +  where 404 = <Response [404]>.status_code

tests/test_api.py:15: AssertionError
____________________________ test_get_gen3_project _____________________________

client = <starlette.testclient.TestClient object at 0x7f2b6bdd3d90>

    def test_get_gen3_project(client):
        response = client.get("/project/demo1")
        result = response.json()
>       assert response.status_code == 200
E       assert 404 == 200
E        +  where 404 = <Response [404]>.status_code

tests/test_api.py:23: AssertionError
___________________________ test_get_gen3_dictionary ___________________________

client = <starlette.testclient.TestClient object at 0x7f2b6b483cd0>

    def test_get_gen3_dictionary(client):
        pass_case = {
            "program": "demo1",
            "project": "12L",
        }
        response = client.post("/dictionary", json=pass_case)
>       assert response.status_code == 200
E       assert 404 == 200
E        +  where 404 = <Response [404]>.status_code

tests/test_api.py:37: AssertionError
__________________________ test_get_gen3_node_records __________________________

client = <starlette.testclient.TestClient object at 0x7f2b6b489b50>

    def test_get_gen3_node_records(client):
        NODE_TYPE = "experiment"
    
        pass_case = {
            "program": "demo1",
            "project": "12L",
        }
>       response = client.post(f"/records/{NODE_TYPE}", json=pass_case)

tests/test_api.py:62: 
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/sessions.py:635: in post
    return self.request("POST", url, data=data, json=json, **kwargs)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/testclient.py:476: in request
    return super().request(
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/sessions.py:587: in request
    resp = self.send(prep, **send_kwargs)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/sessions.py:701: in send
    r = adapter.send(request, **kwargs)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/testclient.py:270: in send
    raise exc
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/testclient.py:267: in send
    portal.call(self.app, scope, receive, send)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/anyio/from_thread.py:283: in call
    return cast(T_Retval, self.start_task_soon(func, *args).result())
/usr/lib/python3.9/concurrent/futures/_base.py:446: in result
    return self.__get_result()
/usr/lib/python3.9/concurrent/futures/_base.py:391: in __get_result
    raise self._exception
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/anyio/from_thread.py:219: in _call_func
    retval = await retval
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/fastapi/applications.py:269: in __call__
    await super().__call__(scope, receive, send)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/applications.py:124: in __call__
    await self.middleware_stack(scope, receive, send)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/middleware/errors.py:184: in __call__
    raise exc
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/middleware/errors.py:162: in __call__
    await self.app(scope, receive, _send)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/middleware/cors.py:84: in __call__
    await self.app(scope, receive, send)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/exceptions.py:93: in __call__
    raise exc
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/exceptions.py:82: in __call__
    await self.app(scope, receive, sender)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/fastapi/middleware/asyncexitstack.py:21: in __call__
    raise e
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/fastapi/middleware/asyncexitstack.py:18: in __call__
    await self.app(scope, receive, send)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/routing.py:670: in __call__
    await route.handle(scope, receive, send)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/routing.py:266: in handle
    await self.app(scope, receive, send)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/routing.py:65: in app
    response = await func(request)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/fastapi/routing.py:227: in app
    raw_response = await run_endpoint_function(
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/fastapi/routing.py:160: in run_endpoint_function
    return await dependant.call(**values)
app/main.py:234: in get_gen3_node_records
    node_record = SUBMISSION.export_node(
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/gen3/submission.py:384: in export_node
    output = requests.get(api_url, auth=self._auth_provider).text
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/api.py:73: in get
    return request("get", url, params=params, **kwargs)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/api.py:59: in request
    return session.request(method=method, url=url, **kwargs)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/sessions.py:573: in request
    prep = self.prepare_request(req)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/sessions.py:484: in prepare_request
    p.prepare(
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/models.py:372: in prepare
    self.prepare_auth(auth, url)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/models.py:603: in prepare_auth
    r = auth(self)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/gen3/auth.py:266: in __call__
    request.headers["Authorization"] = self._get_auth_value()
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/gen3/auth.py:378: in _get_auth_value
    return "bearer " + self.get_access_token()
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/gen3/auth.py:367: in get_access_token
    return self.refresh_access_token(endpoint)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/gen3/auth.py:304: in refresh_access_token
    self._access_token = get_access_token_with_key(self._refresh_token)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/gen3/auth.py:77: in get_access_token_with_key
    return _handle_access_token_response(resp, token_key)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 

resp = <Response [401]>, token_key = 'access_token'

    def _handle_access_token_response(resp, token_key):
        """
        Shared helper for both get_access_token_with_key and get_access_token_from_wts
        """
        err_msg = "Failed to get an access token from {}:\n{}"
        if resp.status_code != 200:
>           raise Gen3AuthError(err_msg.format(resp.url, resp.text))
E           gen3.auth.Gen3AuthError: Failed to get an access token from https://gen3.abi-ctt-ctp.cloud.edu.au/user/credentials/cdis/access_token:
E           <!doctype html>
E           
E           <html lang="en">
E             <head>
E               <meta charset="utf-8">
E               <title>401</title>
E               <link rel="stylesheet" href="/api/static/css/bootstrap.min.css">
E               <link href='https://fonts.googleapis.com/css?family=Source+Sans+Pro' rel='stylesheet' type='text/css'>
E               <script src="https://ajax.googleapis.com/ajax/libs/jquery/1.11.3/jquery.min.js"></script>
E               <script src="/api/static/js/bootstrap.min.js"></script>
E             </head>
E           
E             <body>
E               <main>
E                 <img class="error-page__logo" src="/user/static/img/logo.svg" />
E                 <div class="error-page">
E                   <div class="error-page__banner">
E                     <h1>Gen3 Data Commons</h1>
E                   </div>
E                   <div class="error-page__status-code">
E                     <div class="error-page__status-code-text">
E                       <h1>401</h1>
E                       <h2>Unauthorized</h2>
E                     </div>
E                     <img class="error-page__picture" src="/user/static/img/404.svg" />
E                   </div>
E                   <div class="error-page__information">
E                     <p class="body">Error Identifier:</p>
E                     <p class="introduction">86641426-f601-462c-9e13-4951ad7e6e1a</p>
E                     
E                     <p class="body">Error Message:</p>
E                     <p class="introduction">[401] - Authentication Error: Signature has expired</p>
E                     
E                     <div>
E                       
E                       <p class="body">Please try again!</p>
E                       
E                     </div>
E                   </div>
E                 </div>
E               </main>
E             </body>
E             <style type="text/css">
E           
E             .body {
E               font-size: 16px;
E               color: #9b9b9b;
E               margin: 0;
E             }
E           
E             .introduction {
E               font-size: 18px;
E               font-weight: 500;
E               line-height: 18px;
E               letter-spacing: .03rem;
E               color: #000000;
E               display: inline-block;
E               margin: 13px 0 13px 0;
E             }
E           
E             .auth-data-logo {
E               width: 314px;
E               height: 116px;
E               display: block;
E               margin: auto;
E               margin-bottom: 15px;
E             }
E           
E             body {
E               margin: 30px 30px;
E               background-color: #F5F5F5;
E               font-family: 'Source Sans Pro', sans-serif;
E             }
E           
E             .error-page {
E               width: 100%;
E               display: flex;
E               flex-flow: column;
E               justify-content: center;
E               background-color: white;
E               border: 1px solid #9b9b9b;
E               border-radius: 8px;
E             }
E           
E             .error-page__logo {
E               width: 100%;
E               display: flex;
E               margin-bottom: 15px;
E               max-height: 116px;
E               justify-content: center;
E             }
E           
E             .error-page__banner {
E               min-height: 70px;
E               background-color: #3283C8;
E               text-align: center;
E               color: white;
E               border-radius: 8px 8px 0 0;
E               font-weight: lighter;
E             }
E           
E             .error-page__status-code {
E               display: flex;
E               justify-content: center;
E               align-items: center;
E               margin: 60px 0 25px 0;
E               text-align: center;
E               background-color: white;
E             }
E           
E             .error-page__status-code-text {
E               display: flex;
E               flex-flow: column;
E               margin-right: 20px;
E             }
E           
E             .error-page__status-code-text h1 {
E               font-size: 155px;
E               font-weight: lighter;
E               margin: 0;
E               line-height: 1em;
E             }
E           
E             .error-page__status-code-text h2 {
E               margin: 0;
E             }
E           
E             .error-page__picture {
E               height: 186px;
E               margin-left: 20px;
E             }
E           
E             .error-page__information {
E               margin: 0 30px 60px 30px;
E               border: 1px solid #9b9b9b;
E               border-radius: 4px;
E               background-color: #f5f5f5;
E               padding: 20px 20px;
E             }
E           
E             .error-page__information a {
E               color: #3283C8;
E               text-decoration: none;
E             }
E           
E             </style>
E           </html>

../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/gen3/auth.py:58: Gen3AuthError
_____________________________ test_get_gen3_record _____________________________

client = <starlette.testclient.TestClient object at 0x7f2b74a51fa0>

    def test_get_gen3_record(client):
        UUID = "fcf89c10-20ae-43a9-afb4-a7b107a2b541"
    
        pass_case = {
            "program": "demo1",
            "project": "12L",
        }
>       response = client.post(f"/record/{UUID}", json=pass_case)

tests/test_api.py:103: 
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/sessions.py:635: in post
    return self.request("POST", url, data=data, json=json, **kwargs)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/testclient.py:476: in request
    return super().request(
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/sessions.py:587: in request
    resp = self.send(prep, **send_kwargs)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/sessions.py:701: in send
    r = adapter.send(request, **kwargs)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/testclient.py:270: in send
    raise exc
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/testclient.py:267: in send
    portal.call(self.app, scope, receive, send)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/anyio/from_thread.py:283: in call
    return cast(T_Retval, self.start_task_soon(func, *args).result())
/usr/lib/python3.9/concurrent/futures/_base.py:446: in result
    return self.__get_result()
/usr/lib/python3.9/concurrent/futures/_base.py:391: in __get_result
    raise self._exception
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/anyio/from_thread.py:219: in _call_func
    retval = await retval
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/fastapi/applications.py:269: in __call__
    await super().__call__(scope, receive, send)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/applications.py:124: in __call__
    await self.middleware_stack(scope, receive, send)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/middleware/errors.py:184: in __call__
    raise exc
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/middleware/errors.py:162: in __call__
    await self.app(scope, receive, _send)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/middleware/cors.py:84: in __call__
    await self.app(scope, receive, send)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/exceptions.py:93: in __call__
    raise exc
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/exceptions.py:82: in __call__
    await self.app(scope, receive, sender)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/fastapi/middleware/asyncexitstack.py:21: in __call__
    raise e
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/fastapi/middleware/asyncexitstack.py:18: in __call__
    await self.app(scope, receive, send)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/routing.py:670: in __call__
    await route.handle(scope, receive, send)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/routing.py:266: in handle
    await self.app(scope, receive, send)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/starlette/routing.py:65: in app
    response = await func(request)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/fastapi/routing.py:227: in app
    raw_response = await run_endpoint_function(
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/fastapi/routing.py:160: in run_endpoint_function
    return await dependant.call(**values)
app/main.py:261: in get_gen3_record
    record = SUBMISSION.export_record(
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/gen3/submission.py:348: in export_record
    output = requests.get(api_url, auth=self._auth_provider).text
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/api.py:73: in get
    return request("get", url, params=params, **kwargs)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/api.py:59: in request
    return session.request(method=method, url=url, **kwargs)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/sessions.py:573: in request
    prep = self.prepare_request(req)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/sessions.py:484: in prepare_request
    p.prepare(
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/models.py:372: in prepare
    self.prepare_auth(auth, url)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/requests/models.py:603: in prepare_auth
    r = auth(self)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/gen3/auth.py:266: in __call__
    request.headers["Authorization"] = self._get_auth_value()
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/gen3/auth.py:378: in _get_auth_value
    return "bearer " + self.get_access_token()
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/gen3/auth.py:367: in get_access_token
    return self.refresh_access_token(endpoint)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/gen3/auth.py:304: in refresh_access_token
    self._access_token = get_access_token_with_key(self._refresh_token)
../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/gen3/auth.py:77: in get_access_token_with_key
    return _handle_access_token_response(resp, token_key)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 

resp = <Response [401]>, token_key = 'access_token'

    def _handle_access_token_response(resp, token_key):
        """
        Shared helper for both get_access_token_with_key and get_access_token_from_wts
        """
        err_msg = "Failed to get an access token from {}:\n{}"
        if resp.status_code != 200:
>           raise Gen3AuthError(err_msg.format(resp.url, resp.text))
E           gen3.auth.Gen3AuthError: Failed to get an access token from https://gen3.abi-ctt-ctp.cloud.edu.au/user/credentials/cdis/access_token:
E           <!doctype html>
E           
E           <html lang="en">
E             <head>
E               <meta charset="utf-8">
E               <title>401</title>
E               <link rel="stylesheet" href="/api/static/css/bootstrap.min.css">
E               <link href='https://fonts.googleapis.com/css?family=Source+Sans+Pro' rel='stylesheet' type='text/css'>
E               <script src="https://ajax.googleapis.com/ajax/libs/jquery/1.11.3/jquery.min.js"></script>
E               <script src="/api/static/js/bootstrap.min.js"></script>
E             </head>
E           
E             <body>
E               <main>
E                 <img class="error-page__logo" src="/user/static/img/logo.svg" />
E                 <div class="error-page">
E                   <div class="error-page__banner">
E                     <h1>Gen3 Data Commons</h1>
E                   </div>
E                   <div class="error-page__status-code">
E                     <div class="error-page__status-code-text">
E                       <h1>401</h1>
E                       <h2>Unauthorized</h2>
E                     </div>
E                     <img class="error-page__picture" src="/user/static/img/404.svg" />
E                   </div>
E                   <div class="error-page__information">
E                     <p class="body">Error Identifier:</p>
E                     <p class="introduction">122a6021-319c-4be6-9eb4-14f79fae61fc</p>
E                     
E                     <p class="body">Error Message:</p>
E                     <p class="introduction">[401] - Authentication Error: Signature has expired</p>
E                     
E                     <div>
E                       
E                       <p class="body">Please try again!</p>
E                       
E                     </div>
E                   </div>
E                 </div>
E               </main>
E             </body>
E             <style type="text/css">
E           
E             .body {
E               font-size: 16px;
E               color: #9b9b9b;
E               margin: 0;
E             }
E           
E             .introduction {
E               font-size: 18px;
E               font-weight: 500;
E               line-height: 18px;
E               letter-spacing: .03rem;
E               color: #000000;
E               display: inline-block;
E               margin: 13px 0 13px 0;
E             }
E           
E             .auth-data-logo {
E               width: 314px;
E               height: 116px;
E               display: block;
E               margin: auto;
E               margin-bottom: 15px;
E             }
E           
E             body {
E               margin: 30px 30px;
E               background-color: #F5F5F5;
E               font-family: 'Source Sans Pro', sans-serif;
E             }
E           
E             .error-page {
E               width: 100%;
E               display: flex;
E               flex-flow: column;
E               justify-content: center;
E               background-color: white;
E               border: 1px solid #9b9b9b;
E               border-radius: 8px;
E             }
E           
E             .error-page__logo {
E               width: 100%;
E               display: flex;
E               margin-bottom: 15px;
E               max-height: 116px;
E               justify-content: center;
E             }
E           
E             .error-page__banner {
E               min-height: 70px;
E               background-color: #3283C8;
E               text-align: center;
E               color: white;
E               border-radius: 8px 8px 0 0;
E               font-weight: lighter;
E             }
E           
E             .error-page__status-code {
E               display: flex;
E               justify-content: center;
E               align-items: center;
E               margin: 60px 0 25px 0;
E               text-align: center;
E               background-color: white;
E             }
E           
E             .error-page__status-code-text {
E               display: flex;
E               flex-flow: column;
E               margin-right: 20px;
E             }
E           
E             .error-page__status-code-text h1 {
E               font-size: 155px;
E               font-weight: lighter;
E               margin: 0;
E               line-height: 1em;
E             }
E           
E             .error-page__status-code-text h2 {
E               margin: 0;
E             }
E           
E             .error-page__picture {
E               height: 186px;
E               margin-left: 20px;
E             }
E           
E             .error-page__information {
E               margin: 0 30px 60px 30px;
E               border: 1px solid #9b9b9b;
E               border-radius: 4px;
E               background-color: #f5f5f5;
E               padding: 20px 20px;
E             }
E           
E             .error-page__information a {
E               color: #3283C8;
E               text-decoration: none;
E             }
E           
E             </style>
E           </html>

../../shiningpanda/jobs/084398e7/virtualenvs/d41d8cd9/lib/python3.9/site-packages/gen3/auth.py:58: Gen3AuthError
______________________________ test_graphql_query ______________________________

client = <starlette.testclient.TestClient object at 0x7f2b6b120820>

    def test_graphql_query(client):
        DATASET_ID = "dataset-46-version-2-dataset_description"
        pass_case = {
            "node": "dataset_description",
            "filter": {
                "submitter_id": [DATASET_ID]
            },
            "search": ""
        }
        response = client.post("/graphql/query", json=pass_case)
        result = response.json()
>       assert response.status_code == 200
E       assert 404 == 200
E        +  where 404 = <Response [404]>.status_code

tests/test_api.py:145: AssertionError
___________________________ test_graphql_pagination ____________________________

client = <starlette.testclient.TestClient object at 0x7f2b6ac84670>

    def test_graphql_pagination(client):
        filter_pass_case = {
            "node": "experiment",
            "filter": {
                "1": {
                    "node": "manifest_filter",
                    "filter": {
                        "additional_types": [
                            "text/vnd.abi.plot+tab-separated-values",
                            "text/vnd.abi.plot+csv"
                        ]
                    }
                },
                "2": {
                    "node": "case_filter",
                    "filter": {
                            "species": [
                                "Rattus norvegicus"
                            ]
                    }
                },
                "3": {
                    "node": "dataset_description_filter",
                    "filter": {
                            "study_organ_system": [
                                "stomach"
                            ]
                    }
                },
                "4": {
                    "node": "case_filter",
                    "filter": {
                            "sex": [
                                "Male"
                            ]
                    }
                }
            },
            "relation": "and"
        }
        response = client.post("/graphql/pagination/", json=filter_pass_case)
        result = response.json()
>       assert response.status_code == 200
E       assert 404 == 200
E        +  where 404 = <Response [404]>.status_code

tests/test_api.py:197: AssertionError
_______________________ test_download_gen3_metadata_file _______________________

client = <starlette.testclient.TestClient object at 0x7f2b6ae35550>

    def test_download_gen3_metadata_file(client):
        PROG_NAME = "demo1"
        PROJ_NAME = "12L"
        UUID = "fcf89c10-20ae-43a9-afb4-a7b107a2b541"
        FORM = "json"
        response = client.get(
            f"/metadata/download/{PROG_NAME}/{PROJ_NAME}/{UUID}/{FORM}")
        result = response.json()
>       assert response.status_code == 200
E       assert 400 == 200
E        +  where 400 = <Response [400]>.status_code

tests/test_api.py:309: AssertionError
=============================== warnings summary ===============================
app/sgqlc.py:23
  /home/cmiss/Jenkins/workspace/12-Labours-API/app/sgqlc.py:23: DeprecationWarning: invalid escape sequence \{
    '\'([_a-z]+)\'', r'\1', re.sub('\{([^{].*[^}])\}', r'\1', f'{item.filter}'))

app/search.py:37
app/search.py:37
  /home/cmiss/Jenkins/workspace/12-Labours-API/app/search.py:37: DeprecationWarning: invalid escape sequence \s
    f'(\s{keyword}|{keyword}\s)', result[DataObjectMeta.value])

-- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
=========================== short test summary info ============================
FAILED tests/test_api.py::test_get_gen3_program - assert 404 == 200
FAILED tests/test_api.py::test_get_gen3_project - assert 404 == 200
FAILED tests/test_api.py::test_get_gen3_dictionary - assert 404 == 200
FAILED tests/test_api.py::test_get_gen3_node_records - gen3.auth.Gen3AuthErro...
FAILED tests/test_api.py::test_get_gen3_record - gen3.auth.Gen3AuthError: Fai...
FAILED tests/test_api.py::test_graphql_query - assert 404 == 200
FAILED tests/test_api.py::test_graphql_pagination - assert 404 == 200
FAILED tests/test_api.py::test_download_gen3_metadata_file - assert 400 == 200
=================== 8 failed, 4 passed, 3 warnings in 4.35s ====================
Build step 'Virtualenv Builder' marked build as failure
[Slack Notifications] found #78 as previous completed, non-aborted build
[Slack Notifications] will send OnEveryFailureNotification because build matches and user preferences allow it
Finished: FAILURE