Started by timer
Running as SYSTEM
Building remotely on Ubuntu_18.04_bioeng49 (buildslave Testing) in workspace /home/cmiss/Jenkins/workspace/Segmentation test
[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/ABI-Software/scicrunch-knowledge-testing.git
 > git init /home/cmiss/Jenkins/workspace/Segmentation test # timeout=10
Fetching upstream changes from https://github.com/ABI-Software/scicrunch-knowledge-testing.git
 > git --version # timeout=10
 > git --version # 'git version 2.25.1'
 > git fetch --tags --force --progress -- https://github.com/ABI-Software/scicrunch-knowledge-testing.git +refs/heads/*:refs/remotes/origin/* # timeout=10
 > git config remote.origin.url https://github.com/ABI-Software/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 d3d7b0041f71b26c4bc267594945f0758e855311 (refs/remotes/origin/main)
 > git config core.sparsecheckout # timeout=10
 > git checkout -f d3d7b0041f71b26c4bc267594945f0758e855311 # timeout=10
Commit message: "Merge pull request #20 from ddjnw1yu/testing-script"
 > git rev-list --no-walk d3d7b0041f71b26c4bc267594945f0758e855311 # timeout=10
[Segmentation test] $ /bin/sh -xe /tmp/shiningpanda4754258759405792252.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)
Requirement already satisfied: requests==2.28.1 in /home/cmiss/Jenkins/shiningpanda/jobs/fccc0fad/virtualenvs/d41d8cd9/lib/python3.8/site-packages (from -r requirements.txt (line 1)) (2.28.1)
Requirement already satisfied: algoliasearch==2.6.2 in /home/cmiss/Jenkins/shiningpanda/jobs/fccc0fad/virtualenvs/d41d8cd9/lib/python3.8/site-packages (from -r requirements.txt (line 2)) (2.6.2)
Requirement already satisfied: boto3==1.17.67 in /home/cmiss/Jenkins/shiningpanda/jobs/fccc0fad/virtualenvs/d41d8cd9/lib/python3.8/site-packages (from -r requirements.txt (line 3)) (1.17.67)
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Requirement already satisfied: jmespath<1.0.0,>=0.7.1 in /home/cmiss/Jenkins/shiningpanda/jobs/fccc0fad/virtualenvs/d41d8cd9/lib/python3.8/site-packages (from boto3==1.17.67->-r requirements.txt (line 3)) (0.10.0)
Requirement already satisfied: s3transfer<0.5.0,>=0.4.0 in /home/cmiss/Jenkins/shiningpanda/jobs/fccc0fad/virtualenvs/d41d8cd9/lib/python3.8/site-packages (from boto3==1.17.67->-r requirements.txt (line 3)) (0.4.2)
Requirement already satisfied: wcwidth>=0.2.5 in /home/cmiss/Jenkins/shiningpanda/jobs/fccc0fad/virtualenvs/d41d8cd9/lib/python3.8/site-packages (from ftfy==6.1.1->-r requirements.txt (line 4)) (0.2.13)
Requirement already satisfied: networkx<3.0.0,>=2.8.8 in /home/cmiss/Jenkins/shiningpanda/jobs/fccc0fad/virtualenvs/d41d8cd9/lib/python3.8/site-packages (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)) (2.8.8)
Requirement already satisfied: rdflib<7.0.0,>=6.2.0 in /home/cmiss/Jenkins/shiningpanda/jobs/fccc0fad/virtualenvs/d41d8cd9/lib/python3.8/site-packages (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)) (6.3.2)
Requirement already satisfied: python-dateutil<3.0.0,>=2.1 in /home/cmiss/Jenkins/shiningpanda/jobs/fccc0fad/virtualenvs/d41d8cd9/lib/python3.8/site-packages (from botocore<1.21.0,>=1.20.67->boto3==1.17.67->-r requirements.txt (line 3)) (2.9.0.post0)
Requirement already satisfied: isodate<0.7.0,>=0.6.0 in /home/cmiss/Jenkins/shiningpanda/jobs/fccc0fad/virtualenvs/d41d8cd9/lib/python3.8/site-packages (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)) (0.6.1)
Requirement already satisfied: pyparsing<4,>=2.1.0 in /home/cmiss/Jenkins/shiningpanda/jobs/fccc0fad/virtualenvs/d41d8cd9/lib/python3.8/site-packages (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)) (3.1.2)
Requirement already satisfied: six in /home/cmiss/Jenkins/shiningpanda/jobs/fccc0fad/virtualenvs/d41d8cd9/lib/python3.8/site-packages (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)) (1.16.0)

[notice] A new release of pip is available: 24.1.2 -> 24.3.1
[notice] To update, run: pip install --upgrade pip
+ python -m unittest tests/slow_tests/segmentation_tests.py
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======================================================================
FAIL: test_files_information (tests.slow_tests.segmentation_tests.SegmentationDatasetFilesTest)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/home/cmiss/Jenkins/workspace/Segmentation test/tests/slow_tests/segmentation_tests.py", line 440, in test_files_information
    self.assertEqual(0, len(reports['FailedIds']))
AssertionError: 0 != 13

----------------------------------------------------------------------
Ran 1 test in 514.516s

FAILED (failures=1)

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Number of datasets tested: 329
Number of dataset with erros: 13
Failed Datasets: ['31', '64', '43', '314', '120', '125', '230', '77', '60', '347', '225', '226', '221']
Full report has been generated at reports/segmentation_reports.json
Build step 'Virtualenv Builder' marked build as failure
Archiving artifacts
Finished: FAILURE