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Started by timer
Running as SYSTEM
Building remotely on Ubuntu_18.04_bioeng49 (buildslave Testing) in workspace /home/cmiss/Jenkins/workspace/SciCrunch Knowledge Testing
[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/alan-wu/scicrunch-knowledge-testing.git
 > git init /home/cmiss/Jenkins/workspace/SciCrunch Knowledge Testing # timeout=10
Fetching upstream changes from https://github.com/alan-wu/scicrunch-knowledge-testing.git
 > git --version # timeout=10
 > git --version # 'git version 2.25.1'
 > git fetch --tags --force --progress -- https://github.com/alan-wu/scicrunch-knowledge-testing.git +refs/heads/*:refs/remotes/origin/* # timeout=10
 > git config remote.origin.url https://github.com/alan-wu/scicrunch-knowledge-testing.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/main^{commit} # timeout=10
Checking out Revision 3d05adb35e4bcf1e06033cba3e971c2ec60eb068 (refs/remotes/origin/main)
 > git config core.sparsecheckout # timeout=10
 > git checkout -f 3d05adb35e4bcf1e06033cba3e971c2ec60eb068 # timeout=10
Commit message: "Merge pull request #17 from alan-wu/main"
 > git rev-list --no-walk 3d05adb35e4bcf1e06033cba3e971c2ec60eb068 # timeout=10
[SciCrunch Knowledge Testing] $ /usr/bin/python3.9 /home/cmiss/Jenkins/shiningpanda/jobs/d0cfff48/virtualenv.py /home/cmiss/Jenkins/shiningpanda/jobs/d0cfff48/virtualenvs/d41d8cd9
/home/cmiss/Jenkins/shiningpanda/jobs/d0cfff48/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/d0cfff48/virtualenvs/d41d8cd9/bin/python3.9
Also creating executable in /home/cmiss/Jenkins/shiningpanda/jobs/d0cfff48/virtualenvs/d41d8cd9/bin/python
Installing setuptools, pip, wheel...done.
[SciCrunch Knowledge Testing] $ /bin/sh -xe /tmp/shiningpanda14124410003483607623.sh
+ export PENNSIEVE_API_HOST=https://api.pennsieve.io/discover
+ export SCICRUNCH_API_HOST=https://scicrunch.org/api/1/elastic/SPARC_PortalDatasets_pr
+ pip install -r requirements.txt
Collecting mapknowledge@ https://github.com/AnatomicMaps/map-knowledge/releases/download/v0.13.1/mapknowledge-0.13.1-py3-none-any.whl (from -r requirements.txt (line 5))
  Downloading https://github.com/AnatomicMaps/map-knowledge/releases/download/v0.13.1/mapknowledge-0.13.1-py3-none-any.whl (18 kB)
Collecting requests==2.28.1 (from -r requirements.txt (line 1))
  Using cached requests-2.28.1-py3-none-any.whl.metadata (4.6 kB)
Collecting algoliasearch==2.6.2 (from -r requirements.txt (line 2))
  Using cached algoliasearch-2.6.2-py2.py3-none-any.whl.metadata (4.4 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 ftfy==6.1.1 (from -r requirements.txt (line 4))
  Using cached ftfy-6.1.1-py3-none-any.whl.metadata (6.1 kB)
Collecting charset-normalizer<3,>=2 (from requests==2.28.1->-r requirements.txt (line 1))
  Using cached charset_normalizer-2.1.1-py3-none-any.whl.metadata (11 kB)
Collecting idna<4,>=2.5 (from requests==2.28.1->-r requirements.txt (line 1))
  Using cached idna-3.7-py3-none-any.whl.metadata (9.9 kB)
Collecting urllib3<1.27,>=1.21.1 (from requests==2.28.1->-r requirements.txt (line 1))
  Using cached urllib3-1.26.18-py2.py3-none-any.whl.metadata (48 kB)
Collecting certifi>=2017.4.17 (from requests==2.28.1->-r requirements.txt (line 1))
  Using cached certifi-2024.2.2-py3-none-any.whl.metadata (2.2 kB)
Collecting botocore<1.21.0,>=1.20.67 (from boto3==1.17.67->-r requirements.txt (line 3))
  Using cached botocore-1.20.112-py2.py3-none-any.whl.metadata (5.6 kB)
Collecting jmespath<1.0.0,>=0.7.1 (from boto3==1.17.67->-r requirements.txt (line 3))
  Using cached jmespath-0.10.0-py2.py3-none-any.whl.metadata (8.0 kB)
Collecting s3transfer<0.5.0,>=0.4.0 (from boto3==1.17.67->-r requirements.txt (line 3))
  Using cached s3transfer-0.4.2-py2.py3-none-any.whl.metadata (1.5 kB)
Collecting wcwidth>=0.2.5 (from ftfy==6.1.1->-r requirements.txt (line 4))
  Using cached wcwidth-0.2.13-py2.py3-none-any.whl.metadata (14 kB)
Collecting networkx<3.0.0,>=2.8.8 (from mapknowledge@ https://github.com/AnatomicMaps/map-knowledge/releases/download/v0.13.1/mapknowledge-0.13.1-py3-none-any.whl->-r requirements.txt (line 5))
  Using cached networkx-2.8.8-py3-none-any.whl.metadata (5.1 kB)
Collecting rdflib<7.0.0,>=6.2.0 (from mapknowledge@ https://github.com/AnatomicMaps/map-knowledge/releases/download/v0.13.1/mapknowledge-0.13.1-py3-none-any.whl->-r requirements.txt (line 5))
  Using cached rdflib-6.3.2-py3-none-any.whl.metadata (11 kB)
Collecting python-dateutil<3.0.0,>=2.1 (from botocore<1.21.0,>=1.20.67->boto3==1.17.67->-r requirements.txt (line 3))
  Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
Collecting isodate<0.7.0,>=0.6.0 (from rdflib<7.0.0,>=6.2.0->mapknowledge@ https://github.com/AnatomicMaps/map-knowledge/releases/download/v0.13.1/mapknowledge-0.13.1-py3-none-any.whl->-r requirements.txt (line 5))
  Using cached isodate-0.6.1-py2.py3-none-any.whl.metadata (9.6 kB)
Collecting pyparsing<4,>=2.1.0 (from rdflib<7.0.0,>=6.2.0->mapknowledge@ https://github.com/AnatomicMaps/map-knowledge/releases/download/v0.13.1/mapknowledge-0.13.1-py3-none-any.whl->-r requirements.txt (line 5))
  Using cached pyparsing-3.1.2-py3-none-any.whl.metadata (5.1 kB)
Collecting six (from isodate<0.7.0,>=0.6.0->rdflib<7.0.0,>=6.2.0->mapknowledge@ https://github.com/AnatomicMaps/map-knowledge/releases/download/v0.13.1/mapknowledge-0.13.1-py3-none-any.whl->-r requirements.txt (line 5))
  Using cached six-1.16.0-py2.py3-none-any.whl.metadata (1.8 kB)
Using cached requests-2.28.1-py3-none-any.whl (62 kB)
Using cached algoliasearch-2.6.2-py2.py3-none-any.whl (35 kB)
Using cached boto3-1.17.67-py2.py3-none-any.whl (131 kB)
Using cached ftfy-6.1.1-py3-none-any.whl (53 kB)
Using cached botocore-1.20.112-py2.py3-none-any.whl (7.7 MB)
Using cached certifi-2024.2.2-py3-none-any.whl (163 kB)
Using cached charset_normalizer-2.1.1-py3-none-any.whl (39 kB)
Using cached idna-3.7-py3-none-any.whl (66 kB)
Using cached jmespath-0.10.0-py2.py3-none-any.whl (24 kB)
Using cached networkx-2.8.8-py3-none-any.whl (2.0 MB)
Using cached rdflib-6.3.2-py3-none-any.whl (528 kB)
Using cached s3transfer-0.4.2-py2.py3-none-any.whl (79 kB)
Using cached urllib3-1.26.18-py2.py3-none-any.whl (143 kB)
Using cached wcwidth-0.2.13-py2.py3-none-any.whl (34 kB)
Using cached isodate-0.6.1-py2.py3-none-any.whl (41 kB)
Using cached pyparsing-3.1.2-py3-none-any.whl (103 kB)
Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
Using cached six-1.16.0-py2.py3-none-any.whl (11 kB)
Installing collected packages: wcwidth, urllib3, six, pyparsing, networkx, jmespath, idna, ftfy, charset-normalizer, certifi, requests, python-dateutil, isodate, rdflib, botocore, algoliasearch, s3transfer, mapknowledge, boto3
Successfully installed algoliasearch-2.6.2 boto3-1.17.67 botocore-1.20.112 certifi-2024.2.2 charset-normalizer-2.1.1 ftfy-6.1.1 idna-3.7 isodate-0.6.1 jmespath-0.10.0 mapknowledge-0.13.1 networkx-2.8.8 pyparsing-3.1.2 python-dateutil-2.9.0.post0 rdflib-6.3.2 requests-2.28.1 s3transfer-0.4.2 six-1.16.0 urllib3-1.26.18 wcwidth-0.2.13
+ python -m unittest tests/nightly_tests/test_comparison.py
.F
======================================================================
FAIL: test_doi_information (tests.nightly_tests.test_comparison.ComparisonTestCase)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/home/cmiss/Jenkins/workspace/SciCrunch Knowledge Testing/tests/nightly_tests/test_comparison.py", line 107, in test_doi_information
    checkResult(self, discover_doi, scicrunch_doi, name_doi_map, 'Pennsieve vs SciCrunch')
  File "/home/cmiss/Jenkins/workspace/SciCrunch Knowledge Testing/tests/nightly_tests/test_comparison.py", line 40, in checkResult
    client.assertEqual([], not_found_doi, name)
AssertionError: Lists differ: [] != ['10.26275/t2ve-vu9o', '10.26275/lcqj-dvpi']

Second list contains 2 additional elements.
First extra element 0:
'10.26275/t2ve-vu9o'

- []
+ ['10.26275/t2ve-vu9o', '10.26275/lcqj-dvpi'] : Pennsieve vs SciCrunch

----------------------------------------------------------------------
Ran 2 tests in 11.815s

FAILED (failures=1)
Pennsieve vs SciCrunch: Not found datasets report:
  378 - 10.26275/t2ve-vu9o - Targeting bladder function with network-specific epidural stimulation after chronic spinal cord injury
  372 - 10.26275/lcqj-dvpi - Sex differences in sympathetic gene expression and cardiac neurochemistry in Wistar Kyoto rats
Build step 'Virtualenv Builder' marked build as failure
[Slack Notifications] found #933 as previous completed, non-aborted build
[Slack Notifications] will send OnEveryFailureNotification because build matches and user preferences allow it
Finished: FAILURE