Started by timer Running as SYSTEM Building remotely on Ubuntu_18.04_bioeng49 (buildslave Testing) in workspace /home/cmiss/Jenkins/workspace/SPARC-API [WS-CLEANUP] Deleting project workspace... [WS-CLEANUP] Deferred wipeout is used... [WS-CLEANUP] Done The recommended git tool is: NONE No credentials specified Cloning the remote Git repository Cloning repository https://github.com/nih-sparc/sparc-api.git > git init /home/cmiss/Jenkins/workspace/SPARC-API # timeout=10 Fetching upstream changes from https://github.com/nih-sparc/sparc-api.git > git --version # timeout=10 > git --version # 'git version 2.25.1' > git fetch --tags --force --progress -- https://github.com/nih-sparc/sparc-api.git +refs/heads/*:refs/remotes/origin/* # timeout=10 > git config remote.origin.url https://github.com/nih-sparc/sparc-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/master^{commit} # timeout=10 Checking out Revision c325b8a6bf5b0870e24a334bdfa1d522a24e2db8 (refs/remotes/origin/master) > git config core.sparsecheckout # timeout=10 > git checkout -f c325b8a6bf5b0870e24a334bdfa1d522a24e2db8 # timeout=10 Commit message: "Merge pull request #231 from nih-sparc/upgrade-psycopg2-dependency" > git rev-list --no-walk c325b8a6bf5b0870e24a334bdfa1d522a24e2db8 # timeout=10 [SPARC-API] $ /usr/bin/python3.9 /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenv.py /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9 /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenv.py:1041: DeprecationWarning: the imp module is deprecated in favour of importlib; see the module's documentation for alternative uses import imp Using base prefix '/usr' New python executable in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/bin/python3.9 Also creating executable in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/bin/python Installing setuptools, pip, wheel...done. [SPARC-API] $ /bin/sh -xe /tmp/shiningpanda13143530929205977533.sh + pwd + export PYTHONPATH=/home/cmiss/Jenkins/workspace/SPARC-API + export PROTOCOL_BUFFERS_PYTHON_IMPLEMENTATION=python + pip install -r requirements.txt Collecting api==0.0.7 (from -r requirements.txt (line 1)) Using cached api-0.0.7-py3-none-any.whl Collecting pennsieve==6.1.1 (from -r requirements.txt (line 2)) Using cached pennsieve-6.1.1-py2.py3-none-any.whl.metadata (3.6 kB) Collecting boto3==1.17.67 (from -r requirements.txt (line 3)) Using cached boto3-1.17.67-py2.py3-none-any.whl.metadata (6.2 kB) Collecting botocore==1.20.67 (from -r requirements.txt (line 4)) Using cached botocore-1.20.67-py2.py3-none-any.whl.metadata (5.6 kB) Collecting certifi==2019.11.28 (from -r requirements.txt (line 5)) Using cached certifi-2019.11.28-py2.py3-none-any.whl.metadata (2.5 kB) Collecting chardet==3.0.4 (from -r requirements.txt (line 6)) Using cached chardet-3.0.4-py2.py3-none-any.whl.metadata (3.2 kB) Collecting Click==7.1.2 (from -r requirements.txt (line 7)) Using cached click-7.1.2-py2.py3-none-any.whl.metadata (2.9 kB) Collecting docutils==0.15.2 (from -r requirements.txt (line 8)) Using cached docutils-0.15.2-py3-none-any.whl.metadata (2.6 kB) Collecting Flask==1.1.1 (from -r requirements.txt (line 9)) Using cached Flask-1.1.1-py2.py3-none-any.whl.metadata (4.4 kB) Collecting flask-marshmallow==0.10.1 (from -r requirements.txt (line 10)) Using cached flask_marshmallow-0.10.1-py2.py3-none-any.whl.metadata (5.8 kB) Collecting flask-cors==3.0.8 (from -r requirements.txt (line 11)) Using cached Flask_Cors-3.0.8-py2.py3-none-any.whl.metadata (5.4 kB) Collecting gunicorn==20.0.4 (from -r requirements.txt (line 12)) Using cached gunicorn-20.0.4-py2.py3-none-any.whl.metadata (3.5 kB) Collecting idna==2.8 (from -r requirements.txt (line 13)) Using cached idna-2.8-py2.py3-none-any.whl.metadata (8.9 kB) Collecting itsdangerous==1.1.0 (from -r requirements.txt (line 14)) Using cached itsdangerous-1.1.0-py2.py3-none-any.whl.metadata (3.1 kB) Collecting Jinja2==2.11.3 (from -r requirements.txt (line 15)) Using cached Jinja2-2.11.3-py2.py3-none-any.whl.metadata (3.5 kB) Collecting jmespath==0.9.4 (from -r requirements.txt (line 16)) Using cached jmespath-0.9.4-py2.py3-none-any.whl.metadata (7.9 kB) Collecting MarkupSafe==1.1.1 (from -r requirements.txt (line 17)) Using cached MarkupSafe-1.1.1-cp39-cp39-manylinux2010_x86_64.whl.metadata (3.2 kB) Collecting marshmallow==3.2.2 (from -r requirements.txt (line 18)) Using cached marshmallow-3.2.2-py2.py3-none-any.whl.metadata (7.6 kB) Collecting nose==1.3.7 (from -r requirements.txt (line 19)) Using cached nose-1.3.7-py3-none-any.whl.metadata (1.7 kB) Collecting osparc==0.4.3 (from -r requirements.txt (line 20)) Using cached osparc-0.4.3-py3-none-any.whl.metadata (7.0 kB) Collecting pillow (from -r requirements.txt (line 21)) Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl.metadata (9.2 kB) Collecting public==2019.4.13 (from -r requirements.txt (line 22)) Using cached public-2019.4.13-py3-none-any.whl Collecting pytest (from -r requirements.txt (line 23)) Using cached pytest-8.3.3-py3-none-any.whl.metadata (7.5 kB) Collecting pymongo==3.8.0 (from -r requirements.txt (line 24)) Using cached pymongo-3.8.0-cp39-cp39-linux_x86_64.whl Collecting python-dateutil==2.8.0 (from -r requirements.txt (line 25)) Using cached python_dateutil-2.8.0-py2.py3-none-any.whl.metadata (7.6 kB) Collecting python-dotenv==0.10.3 (from -r requirements.txt (line 26)) Using cached python_dotenv-0.10.3-py2.py3-none-any.whl.metadata (15 kB) Collecting query-string==2019.4.13 (from -r requirements.txt (line 27)) Using cached query_string-2019.4.13-py3-none-any.whl Collecting requests==2.25.1 (from -r requirements.txt (line 28)) Using cached requests-2.25.1-py2.py3-none-any.whl.metadata (4.2 kB) Collecting s3transfer==0.4.2 (from -r requirements.txt (line 29)) Using cached s3transfer-0.4.2-py2.py3-none-any.whl.metadata (1.5 kB) Collecting sendgrid==6.9.7 (from -r requirements.txt (line 30)) Using cached sendgrid-6.9.7-py3-none-any.whl.metadata (12 kB) Collecting six==1.13.0 (from -r requirements.txt (line 31)) Using cached six-1.13.0-py2.py3-none-any.whl.metadata (1.9 kB) Collecting SQLAlchemy==1.3.20 (from -r requirements.txt (line 32)) Using cached SQLAlchemy-1.3.20-cp39-cp39-manylinux2010_x86_64.whl.metadata (7.8 kB) Collecting urllib3==1.26.4 (from -r requirements.txt (line 33)) Using cached urllib3-1.26.4-py2.py3-none-any.whl.metadata (43 kB) Collecting Werkzeug==0.16.0 (from -r requirements.txt (line 34)) Using cached Werkzeug-0.16.0-py2.py3-none-any.whl.metadata (4.7 kB) Collecting psycopg2-binary==2.9.9 (from -r requirements.txt (line 35)) Using cached psycopg2_binary-2.9.9-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (4.4 kB) Collecting APScheduler==3.7.0 (from -r requirements.txt (line 36)) Using cached APScheduler-3.7.0-py2.py3-none-any.whl.metadata (5.7 kB) Collecting google-api-python-client==2.52.0 (from -r requirements.txt (line 37)) Using cached google_api_python_client-2.52.0-py2.py3-none-any.whl.metadata (6.6 kB) Collecting oauth2client==4.1.3 (from -r requirements.txt (line 38)) Using cached oauth2client-4.1.3-py2.py3-none-any.whl.metadata (1.2 kB) Collecting algoliasearch==2.6.2 (from -r requirements.txt (line 39)) Using cached algoliasearch-2.6.2-py2.py3-none-any.whl.metadata (4.4 kB) Collecting contentful==1.13.1 (from -r requirements.txt (line 40)) Using cached contentful-1.13.1-py3-none-any.whl Collecting contentful_management==2.11.0 (from -r requirements.txt (line 41)) Using cached contentful_management-2.11.0-py3-none-any.whl Collecting Flask-Caching==2.3.0 (from -r requirements.txt (line 42)) Using cached Flask_Caching-2.3.0-py3-none-any.whl.metadata (2.2 kB) Collecting configparser>=3.5 (from pennsieve==6.1.1->-r requirements.txt (line 2)) Using cached configparser-7.1.0-py3-none-any.whl.metadata (5.4 kB) Collecting deprecated>=1.2.0 (from pennsieve==6.1.1->-r requirements.txt (line 2)) Using cached Deprecated-1.2.14-py2.py3-none-any.whl.metadata (5.4 kB) Collecting future>=0.15.0 (from pennsieve==6.1.1->-r requirements.txt (line 2)) Using cached future-1.0.0-py3-none-any.whl.metadata (4.0 kB) Collecting futures (from pennsieve==6.1.1->-r requirements.txt (line 2)) Using cached futures-3.0.5-py3-none-any.whl Collecting protobuf>=3.2.0 (from pennsieve==6.1.1->-r requirements.txt (line 2)) Using cached protobuf-5.28.0-cp38-abi3-manylinux2014_x86_64.whl.metadata (592 bytes) Collecting python-jose==3.2.0 (from pennsieve==6.1.1->-r requirements.txt (line 2)) Using cached python_jose-3.2.0-py2.py3-none-any.whl.metadata (5.1 kB) Collecting pytz>=2016 (from pennsieve==6.1.1->-r requirements.txt (line 2)) Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB) Collecting rsa==4.0 (from pennsieve==6.1.1->-r requirements.txt (line 2)) Using cached rsa-4.0-py2.py3-none-any.whl.metadata (3.0 kB) Collecting semver>=2.8.0 (from pennsieve==6.1.1->-r requirements.txt (line 2)) Using cached semver-3.0.2-py3-none-any.whl.metadata (5.0 kB) Collecting websocket-client>=0.57.0 (from pennsieve==6.1.1->-r requirements.txt (line 2)) Using cached websocket_client-1.8.0-py3-none-any.whl.metadata (8.0 kB) Collecting docopt>=0.6 (from pennsieve==6.1.1->-r requirements.txt (line 2)) Using cached docopt-0.6.2-py2.py3-none-any.whl Collecting psutil>=5.4 (from pennsieve==6.1.1->-r requirements.txt (line 2)) Using cached psutil-6.0.0-cp36-abi3-manylinux_2_12_x86_64.manylinux2010_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (21 kB) Requirement already satisfied: setuptools>=3.0 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from gunicorn==20.0.4->-r requirements.txt (line 12)) (74.1.2) Collecting python-http-client>=3.2.1 (from sendgrid==6.9.7->-r requirements.txt (line 30)) Using cached python_http_client-3.3.7-py3-none-any.whl.metadata (6.9 kB) Collecting starkbank-ecdsa>=2.0.1 (from sendgrid==6.9.7->-r requirements.txt (line 30)) Using cached starkbank_ecdsa-2.2.0-py3-none-any.whl Collecting tzlocal~=2.0 (from APScheduler==3.7.0->-r requirements.txt (line 36)) Using cached tzlocal-2.1-py2.py3-none-any.whl.metadata (8.2 kB) Collecting httplib2<1dev,>=0.15.0 (from google-api-python-client==2.52.0->-r requirements.txt (line 37)) Using cached httplib2-0.22.0-py3-none-any.whl.metadata (2.6 kB) Collecting google-auth<3.0.0dev,>=1.19.0 (from google-api-python-client==2.52.0->-r requirements.txt (line 37)) Using cached google_auth-2.34.0-py2.py3-none-any.whl.metadata (4.7 kB) Collecting google-auth-httplib2>=0.1.0 (from google-api-python-client==2.52.0->-r requirements.txt (line 37)) Using cached google_auth_httplib2-0.2.0-py2.py3-none-any.whl.metadata (2.2 kB) Collecting google-api-core!=2.0.*,!=2.1.*,!=2.2.*,!=2.3.0,<3.0.0dev,>=1.31.5 (from google-api-python-client==2.52.0->-r requirements.txt (line 37)) Using cached google_api_core-2.19.2-py3-none-any.whl.metadata (2.7 kB) Collecting uritemplate<5,>=3.0.1 (from google-api-python-client==2.52.0->-r requirements.txt (line 37)) Using cached uritemplate-4.1.1-py2.py3-none-any.whl.metadata (2.9 kB) Collecting pyasn1>=0.1.7 (from oauth2client==4.1.3->-r requirements.txt (line 38)) Using cached pyasn1-0.6.0-py2.py3-none-any.whl.metadata (8.3 kB) Collecting pyasn1-modules>=0.0.5 (from oauth2client==4.1.3->-r requirements.txt (line 38)) Using cached pyasn1_modules-0.4.0-py3-none-any.whl.metadata (3.4 kB) Collecting cachelib<0.10.0,>=0.9.0 (from Flask-Caching==2.3.0->-r requirements.txt (line 42)) Using cached cachelib-0.9.0-py3-none-any.whl.metadata (1.9 kB) Collecting ecdsa<0.15 (from python-jose==3.2.0->pennsieve==6.1.1->-r requirements.txt (line 2)) Using cached ecdsa-0.14.1-py2.py3-none-any.whl.metadata (19 kB) Collecting iniconfig (from pytest->-r requirements.txt (line 23)) Using cached iniconfig-2.0.0-py3-none-any.whl.metadata (2.6 kB) Collecting packaging (from pytest->-r requirements.txt (line 23)) Using cached packaging-24.1-py3-none-any.whl.metadata (3.2 kB) Collecting pluggy<2,>=1.5 (from pytest->-r requirements.txt (line 23)) Using cached pluggy-1.5.0-py3-none-any.whl.metadata (4.8 kB) Collecting exceptiongroup>=1.0.0rc8 (from pytest->-r requirements.txt (line 23)) Using cached exceptiongroup-1.2.2-py3-none-any.whl.metadata (6.6 kB) Collecting tomli>=1 (from pytest->-r requirements.txt (line 23)) Using cached tomli-2.0.1-py3-none-any.whl.metadata (8.9 kB) Collecting wrapt<2,>=1.10 (from deprecated>=1.2.0->pennsieve==6.1.1->-r requirements.txt (line 2)) Using cached wrapt-1.16.0-cp39-cp39-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (6.6 kB) Collecting googleapis-common-protos<2.0.dev0,>=1.56.2 (from google-api-core!=2.0.*,!=2.1.*,!=2.2.*,!=2.3.0,<3.0.0dev,>=1.31.5->google-api-python-client==2.52.0->-r requirements.txt (line 37)) Using cached googleapis_common_protos-1.65.0-py2.py3-none-any.whl.metadata (1.5 kB) Collecting proto-plus<2.0.0dev,>=1.22.3 (from google-api-core!=2.0.*,!=2.1.*,!=2.2.*,!=2.3.0,<3.0.0dev,>=1.31.5->google-api-python-client==2.52.0->-r requirements.txt (line 37)) Using cached proto_plus-1.24.0-py3-none-any.whl.metadata (2.2 kB) Collecting cachetools<6.0,>=2.0.0 (from google-auth<3.0.0dev,>=1.19.0->google-api-python-client==2.52.0->-r requirements.txt (line 37)) Using cached cachetools-5.5.0-py3-none-any.whl.metadata (5.3 kB) Collecting pyparsing!=3.0.0,!=3.0.1,!=3.0.2,!=3.0.3,<4,>=2.4.2 (from httplib2<1dev,>=0.15.0->google-api-python-client==2.52.0->-r requirements.txt (line 37)) Using cached pyparsing-3.1.4-py3-none-any.whl.metadata (5.1 kB) Using cached pennsieve-6.1.1-py2.py3-none-any.whl (93 kB) Using cached boto3-1.17.67-py2.py3-none-any.whl (131 kB) Using cached botocore-1.20.67-py2.py3-none-any.whl (7.5 MB) Using cached certifi-2019.11.28-py2.py3-none-any.whl (156 kB) Using cached chardet-3.0.4-py2.py3-none-any.whl (133 kB) Using cached click-7.1.2-py2.py3-none-any.whl (82 kB) Using cached docutils-0.15.2-py3-none-any.whl (547 kB) Using cached Flask-1.1.1-py2.py3-none-any.whl (94 kB) Using cached flask_marshmallow-0.10.1-py2.py3-none-any.whl (9.7 kB) Using cached Flask_Cors-3.0.8-py2.py3-none-any.whl (14 kB) Using cached gunicorn-20.0.4-py2.py3-none-any.whl (77 kB) Using cached idna-2.8-py2.py3-none-any.whl (58 kB) Using cached itsdangerous-1.1.0-py2.py3-none-any.whl (16 kB) Using cached Jinja2-2.11.3-py2.py3-none-any.whl (125 kB) Using cached jmespath-0.9.4-py2.py3-none-any.whl (24 kB) Using cached MarkupSafe-1.1.1-cp39-cp39-manylinux2010_x86_64.whl (32 kB) Using cached marshmallow-3.2.2-py2.py3-none-any.whl (45 kB) Using cached nose-1.3.7-py3-none-any.whl (154 kB) Using cached osparc-0.4.3-py3-none-any.whl (52 kB) Using cached python_dateutil-2.8.0-py2.py3-none-any.whl (226 kB) Using cached python_dotenv-0.10.3-py2.py3-none-any.whl (16 kB) Using cached requests-2.25.1-py2.py3-none-any.whl (61 kB) Using cached s3transfer-0.4.2-py2.py3-none-any.whl (79 kB) Using cached sendgrid-6.9.7-py3-none-any.whl (101 kB) Using cached six-1.13.0-py2.py3-none-any.whl (10 kB) Using cached SQLAlchemy-1.3.20-cp39-cp39-manylinux2010_x86_64.whl (1.3 MB) Using cached urllib3-1.26.4-py2.py3-none-any.whl (153 kB) Using cached Werkzeug-0.16.0-py2.py3-none-any.whl (327 kB) Using cached psycopg2_binary-2.9.9-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (3.0 MB) Using cached APScheduler-3.7.0-py2.py3-none-any.whl (59 kB) Using cached google_api_python_client-2.52.0-py2.py3-none-any.whl (8.7 MB) Using cached oauth2client-4.1.3-py2.py3-none-any.whl (98 kB) Using cached algoliasearch-2.6.2-py2.py3-none-any.whl (35 kB) Using cached Flask_Caching-2.3.0-py3-none-any.whl (28 kB) Using cached python_jose-3.2.0-py2.py3-none-any.whl (26 kB) Using cached rsa-4.0-py2.py3-none-any.whl (38 kB) Using cached pillow-10.4.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.5 MB) Using cached pytest-8.3.3-py3-none-any.whl (342 kB) Using cached cachelib-0.9.0-py3-none-any.whl (15 kB) Using cached configparser-7.1.0-py3-none-any.whl (17 kB) Using cached Deprecated-1.2.14-py2.py3-none-any.whl (9.6 kB) Using cached exceptiongroup-1.2.2-py3-none-any.whl (16 kB) Using cached future-1.0.0-py3-none-any.whl (491 kB) Using cached google_api_core-2.19.2-py3-none-any.whl (139 kB) Using cached google_auth-2.34.0-py2.py3-none-any.whl (200 kB) Using cached google_auth_httplib2-0.2.0-py2.py3-none-any.whl (9.3 kB) Using cached httplib2-0.22.0-py3-none-any.whl (96 kB) Using cached pluggy-1.5.0-py3-none-any.whl (20 kB) Using cached protobuf-5.28.0-cp38-abi3-manylinux2014_x86_64.whl (316 kB) Using cached psutil-6.0.0-cp36-abi3-manylinux_2_12_x86_64.manylinux2010_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl (290 kB) Using cached pyasn1-0.6.0-py2.py3-none-any.whl (85 kB) Using cached pyasn1_modules-0.4.0-py3-none-any.whl (181 kB) Using cached python_http_client-3.3.7-py3-none-any.whl (8.4 kB) Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB) Using cached semver-3.0.2-py3-none-any.whl (17 kB) Using cached tomli-2.0.1-py3-none-any.whl (12 kB) Using cached tzlocal-2.1-py2.py3-none-any.whl (16 kB) Using cached uritemplate-4.1.1-py2.py3-none-any.whl (10 kB) Using cached websocket_client-1.8.0-py3-none-any.whl (58 kB) Using cached iniconfig-2.0.0-py3-none-any.whl (5.9 kB) Using cached packaging-24.1-py3-none-any.whl (53 kB) Using cached cachetools-5.5.0-py3-none-any.whl (9.5 kB) Using cached ecdsa-0.14.1-py2.py3-none-any.whl (79 kB) Using cached googleapis_common_protos-1.65.0-py2.py3-none-any.whl (220 kB) Using cached proto_plus-1.24.0-py3-none-any.whl (50 kB) Using cached pyparsing-3.1.4-py3-none-any.whl (104 kB) Using cached wrapt-1.16.0-cp39-cp39-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl (80 kB) Installing collected packages: starkbank-ecdsa, pytz, python-dotenv, nose, jmespath, futures, docopt, chardet, certifi, wrapt, Werkzeug, websocket-client, urllib3, uritemplate, tzlocal, tomli, SQLAlchemy, six, semver, python-http-client, pyparsing, pymongo, pyasn1, public, psycopg2-binary, psutil, protobuf, pluggy, pillow, packaging, marshmallow, MarkupSafe, itsdangerous, iniconfig, idna, gunicorn, future, exceptiongroup, docutils, configparser, Click, cachetools, cachelib, sendgrid, rsa, requests, query-string, python-dateutil, pytest, pyasn1-modules, proto-plus, Jinja2, httplib2, googleapis-common-protos, ecdsa, deprecated, APScheduler, python-jose, osparc, oauth2client, google-auth, Flask, contentful_management, contentful, botocore, api, algoliasearch, s3transfer, google-auth-httplib2, google-api-core, flask-marshmallow, flask-cors, Flask-Caching, google-api-python-client, boto3, pennsieve Successfully installed APScheduler-3.7.0 Click-7.1.2 Flask-1.1.1 Flask-Caching-2.3.0 Jinja2-2.11.3 MarkupSafe-1.1.1 SQLAlchemy-1.3.20 Werkzeug-0.16.0 algoliasearch-2.6.2 api-0.0.7 boto3-1.17.67 botocore-1.20.67 cachelib-0.9.0 cachetools-5.5.0 certifi-2019.11.28 chardet-3.0.4 configparser-7.1.0 contentful-1.13.1 contentful_management-2.11.0 deprecated-1.2.14 docopt-0.6.2 docutils-0.15.2 ecdsa-0.14.1 exceptiongroup-1.2.2 flask-cors-3.0.8 flask-marshmallow-0.10.1 future-1.0.0 futures-3.0.5 google-api-core-2.19.2 google-api-python-client-2.52.0 google-auth-2.34.0 google-auth-httplib2-0.2.0 googleapis-common-protos-1.65.0 gunicorn-20.0.4 httplib2-0.22.0 idna-2.8 iniconfig-2.0.0 itsdangerous-1.1.0 jmespath-0.9.4 marshmallow-3.2.2 nose-1.3.7 oauth2client-4.1.3 osparc-0.4.3 packaging-24.1 pennsieve-6.1.1 pillow-10.4.0 pluggy-1.5.0 proto-plus-1.24.0 protobuf-5.28.0 psutil-6.0.0 psycopg2-binary-2.9.9 public-2019.4.13 pyasn1-0.6.0 pyasn1-modules-0.4.0 pymongo-3.8.0 pyparsing-3.1.4 pytest-8.3.3 python-dateutil-2.8.0 python-dotenv-0.10.3 python-http-client-3.3.7 python-jose-3.2.0 pytz-2024.1 query-string-2019.4.13 requests-2.25.1 rsa-4.0 s3transfer-0.4.2 semver-3.0.2 sendgrid-6.9.7 six-1.13.0 starkbank-ecdsa-2.2.0 tomli-2.0.1 tzlocal-2.1 uritemplate-4.1.1 urllib3-1.26.4 websocket-client-1.8.0 wrapt-1.16.0 + pip install -r requirements-dev.txt Collecting pytest==5.4.3 (from -r requirements-dev.txt (line 1)) Using cached pytest-5.4.3-py3-none-any.whl.metadata (7.3 kB) Requirement already satisfied: pennsieve==6.1.1 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from -r requirements-dev.txt (line 2)) (6.1.1) Collecting black (from -r requirements-dev.txt (line 3)) Using cached black-24.8.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.manylinux_2_28_x86_64.whl.metadata (78 kB) Collecting isort (from -r requirements-dev.txt (line 4)) Using cached isort-5.13.2-py3-none-any.whl.metadata (12 kB) Requirement already satisfied: nose in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from -r requirements-dev.txt (line 5)) (1.3.7) Requirement already satisfied: packaging in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from -r requirements-dev.txt (line 6)) (24.1) Collecting py>=1.5.0 (from pytest==5.4.3->-r requirements-dev.txt (line 1)) Using cached py-1.11.0-py2.py3-none-any.whl.metadata (2.8 kB) Collecting attrs>=17.4.0 (from pytest==5.4.3->-r requirements-dev.txt (line 1)) Using cached attrs-24.2.0-py3-none-any.whl.metadata (11 kB) Collecting more-itertools>=4.0.0 (from pytest==5.4.3->-r requirements-dev.txt (line 1)) Using cached more_itertools-10.5.0-py3-none-any.whl.metadata (36 kB) Collecting pluggy<1.0,>=0.12 (from pytest==5.4.3->-r requirements-dev.txt (line 1)) Using cached pluggy-0.13.1-py2.py3-none-any.whl.metadata (15 kB) Collecting wcwidth (from pytest==5.4.3->-r requirements-dev.txt (line 1)) Using cached wcwidth-0.2.13-py2.py3-none-any.whl.metadata (14 kB) Requirement already satisfied: boto3 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (1.17.67) Requirement already satisfied: configparser>=3.5 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (7.1.0) Requirement already satisfied: deprecated>=1.2.0 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (1.2.14) Requirement already satisfied: future>=0.15.0 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (1.0.0) Requirement already satisfied: futures in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (3.0.5) Requirement already satisfied: protobuf>=3.2.0 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (5.28.0) Requirement already satisfied: python-jose==3.2.0 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (3.2.0) Requirement already satisfied: pytz>=2016 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (2024.1) Requirement already satisfied: requests>=2.18 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (2.25.1) Requirement already satisfied: rsa==4.0 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (4.0) Requirement already satisfied: semver>=2.8.0 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (3.0.2) Requirement already satisfied: websocket-client>=0.57.0 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (1.8.0) Requirement already satisfied: docopt>=0.6 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (0.6.2) Requirement already satisfied: psutil>=5.4 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (6.0.0) Requirement already satisfied: python-dateutil>=2.8.0 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (2.8.0) Requirement already satisfied: six<2.0 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from python-jose==3.2.0->pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (1.13.0) Requirement already satisfied: ecdsa<0.15 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from python-jose==3.2.0->pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (0.14.1) Requirement already satisfied: pyasn1 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from python-jose==3.2.0->pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (0.6.0) Collecting click>=8.0.0 (from black->-r requirements-dev.txt (line 3)) Using cached click-8.1.7-py3-none-any.whl.metadata (3.0 kB) Collecting mypy-extensions>=0.4.3 (from black->-r requirements-dev.txt (line 3)) Using cached mypy_extensions-1.0.0-py3-none-any.whl.metadata (1.1 kB) Collecting pathspec>=0.9.0 (from black->-r requirements-dev.txt (line 3)) Using cached pathspec-0.12.1-py3-none-any.whl.metadata (21 kB) Collecting platformdirs>=2 (from black->-r requirements-dev.txt (line 3)) Using cached platformdirs-4.3.2-py3-none-any.whl.metadata (11 kB) Requirement already satisfied: tomli>=1.1.0 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from black->-r requirements-dev.txt (line 3)) (2.0.1) Collecting typing-extensions>=4.0.1 (from black->-r requirements-dev.txt (line 3)) Using cached typing_extensions-4.12.2-py3-none-any.whl.metadata (3.0 kB) Requirement already satisfied: wrapt<2,>=1.10 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from deprecated>=1.2.0->pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (1.16.0) Requirement already satisfied: chardet<5,>=3.0.2 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from requests>=2.18->pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (3.0.4) Requirement already satisfied: idna<3,>=2.5 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from requests>=2.18->pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (2.8) Requirement already satisfied: urllib3<1.27,>=1.21.1 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from requests>=2.18->pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (1.26.4) Requirement already satisfied: certifi>=2017.4.17 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from requests>=2.18->pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (2019.11.28) Requirement already satisfied: botocore<1.21.0,>=1.20.67 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from boto3->pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (1.20.67) Requirement already satisfied: jmespath<1.0.0,>=0.7.1 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from boto3->pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (0.9.4) Requirement already satisfied: s3transfer<0.5.0,>=0.4.0 in /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages (from boto3->pennsieve==6.1.1->-r requirements-dev.txt (line 2)) (0.4.2) Using cached pytest-5.4.3-py3-none-any.whl (248 kB) Using cached black-24.8.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.manylinux_2_28_x86_64.whl (1.8 MB) Using cached isort-5.13.2-py3-none-any.whl (92 kB) Using cached attrs-24.2.0-py3-none-any.whl (63 kB) Using cached click-8.1.7-py3-none-any.whl (97 kB) Using cached more_itertools-10.5.0-py3-none-any.whl (60 kB) Using cached mypy_extensions-1.0.0-py3-none-any.whl (4.7 kB) Using cached pathspec-0.12.1-py3-none-any.whl (31 kB) Using cached platformdirs-4.3.2-py3-none-any.whl (18 kB) Using cached pluggy-0.13.1-py2.py3-none-any.whl (18 kB) Using cached py-1.11.0-py2.py3-none-any.whl (98 kB) Using cached typing_extensions-4.12.2-py3-none-any.whl (37 kB) Using cached wcwidth-0.2.13-py2.py3-none-any.whl (34 kB) Installing collected packages: wcwidth, typing-extensions, py, pluggy, platformdirs, pathspec, mypy-extensions, more-itertools, isort, click, attrs, pytest, black Attempting uninstall: pluggy Found existing installation: pluggy 1.5.0 Uninstalling pluggy-1.5.0: Successfully uninstalled pluggy-1.5.0 Attempting uninstall: click Found existing installation: click 7.1.2 Uninstalling click-7.1.2: Successfully uninstalled click-7.1.2 Attempting uninstall: pytest Found existing installation: pytest 8.3.3 Uninstalling pytest-8.3.3: Successfully uninstalled pytest-8.3.3 Successfully installed attrs-24.2.0 black-24.8.0 click-8.1.7 isort-5.13.2 more-itertools-10.5.0 mypy-extensions-1.0.0 pathspec-0.12.1 platformdirs-4.3.2 pluggy-0.13.1 py-1.11.0 pytest-5.4.3 typing-extensions-4.12.2 wcwidth-0.2.13 + pytest ============================= test session starts ============================== platform linux -- Python 3.9.20, pytest-5.4.3, py-1.11.0, pluggy-0.13.1 rootdir: /home/cmiss/Jenkins/workspace/SPARC-API collected 109 items tests/test_api.py ................... [ 17%] tests/test_biolucida.py ............. [ 29%] tests/test_dataset_info.py .s..ss..... [ 39%] tests/test_health.py . [ 40%] tests/test_monthly_stats.py ......... [ 48%] tests/test_osparc.py .............. [ 61%] tests/test_pmr.py ......... [ 69%] tests/test_scicrunch.py .................s......... [ 94%] tests/test_segmentation_info.py .. [ 96%] tests/test_thumbnails.py ... [ 99%] tests/test_update_contentful_entries.py . [100%] =============================== warnings summary =============================== /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/apscheduler/__init__.py:1 /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/apscheduler/__init__.py:1: DeprecationWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html from pkg_resources import get_distribution, DistributionNotFound /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/marshmallow/__init__.py:17 /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/marshmallow/__init__.py:17: DeprecationWarning: distutils Version classes are deprecated. Use packaging.version instead. __version_info__ = tuple(LooseVersion(__version__).version) /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/flask_marshmallow/__init__.py:34 /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/flask_marshmallow/__init__.py:34: DeprecationWarning: distutils Version classes are deprecated. Use packaging.version instead. __version_info__ = tuple(LooseVersion(__version__).version) /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/pennsieve/cache/cache_segment_pb2.py:19 /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/pennsieve/cache/cache_segment_pb2.py:19: DeprecationWarning: Call to deprecated create function FileDescriptor(). Note: Create unlinked descriptors is going to go away. Please use get/find descriptors from generated code or query the descriptor_pool. DESCRIPTOR = _descriptor.FileDescriptor( /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/pennsieve/cache/cache_segment_pb2.py:36 /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/pennsieve/cache/cache_segment_pb2.py:36: DeprecationWarning: Call to deprecated create function FieldDescriptor(). Note: Create unlinked descriptors is going to go away. Please use get/find descriptors from generated code or query the descriptor_pool. _descriptor.FieldDescriptor( /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/pennsieve/cache/cache_segment_pb2.py:53 /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/pennsieve/cache/cache_segment_pb2.py:53: DeprecationWarning: Call to deprecated create function FieldDescriptor(). Note: Create unlinked descriptors is going to go away. Please use get/find descriptors from generated code or query the descriptor_pool. _descriptor.FieldDescriptor( /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/pennsieve/cache/cache_segment_pb2.py:70 /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/pennsieve/cache/cache_segment_pb2.py:70: DeprecationWarning: Call to deprecated create function FieldDescriptor(). Note: Create unlinked descriptors is going to go away. Please use get/find descriptors from generated code or query the descriptor_pool. _descriptor.FieldDescriptor( /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/pennsieve/cache/cache_segment_pb2.py:29 /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/pennsieve/cache/cache_segment_pb2.py:29: DeprecationWarning: Call to deprecated create function Descriptor(). Note: Create unlinked descriptors is going to go away. Please use get/find descriptors from generated code or query the descriptor_pool. _CACHESEGMENT = _descriptor.Descriptor( /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/nose/importer.py:12 /home/cmiss/Jenkins/shiningpanda/jobs/c6a9534b/virtualenvs/d41d8cd9/lib/python3.9/site-packages/nose/importer.py:12: DeprecationWarning: the imp module is deprecated in favour of importlib; see the module's documentation for alternative uses from imp import find_module, load_module, acquire_lock, release_lock tests/test_health.py::test_request_response /home/cmiss/Jenkins/workspace/SPARC-API/tests/test_health.py:13: DeprecationWarning: Please use assertEqual instead. assert_equals("healthy", json_response.get("status")) -- Docs: https://docs.pytest.org/en/latest/warnings.html =========== 105 passed, 4 skipped, 10 warnings in 231.26s (0:03:51) ============ [Slack Notifications] found #1218 as previous completed, non-aborted build Finished: SUCCESS