Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Unit tests pass when they should fail #6

Open
alexskr opened this issue Feb 17, 2017 · 0 comments
Open

Unit tests pass when they should fail #6

alexskr opened this issue Feb 17, 2017 · 0 comments
Assignees
@mdorf
Labels
bug

Comments

@alexskr
Copy link
Member

alexskr commented Feb 17, 2017 •
edited
Loading

there was a configuration problem with the jenkins job running unit tests which should have caused unit test failure; however, unit tests passed successfully

# Running tests:

I, [2017-02-17T13:32:06.726533 #19039]  INFO -- : UMLS auto-pull false
I, [2017-02-17T13:32:06.830106 #19039]  INFO -- : Checking download for TEST-ONT-0
I, [2017-02-17T13:32:06.830169 #19039]  INFO -- : Location: http://localhost:56554/
127.0.0.1 - - [17/Feb/2017:13:32:06 PST] "HEAD / HTTP/1.1" 200 0
- -> /
I, [2017-02-17T13:32:06.836062 #19039]  INFO -- : New file found for TEST-ONT-0
old: 3f6ee6284fbe3fd1a9d115f6cc110ebb
new: dda00d1aea17a3bf3fdfd6ac8be09fce
127.0.0.1 - - [17/Feb/2017:13:32:06 PST] "GET / HTTP/1.1" 200 381766
- -> /
I, [2017-02-17T13:32:07.072483 #19039]  INFO -- : OntologyPull created a new submission (2) for ontology TEST-ONT-0
I, [2017-02-17T13:32:08.210718 #19039]  INFO -- : UMLS auto-pull false
127.0.0.1 - - [17/Feb/2017:13:32:08 PST] "HEAD / HTTP/1.1" 200 0
- -> /
I, [2017-02-17T13:32:08.269761 #19039]  INFO -- : Checking download for TEST-ONT-0
I, [2017-02-17T13:32:08.269811 #19039]  INFO -- : Location: http://localhost:56554/
I, [2017-02-17T13:32:08.274929 #19039]  INFO -- : New file found for TEST-ONT-0
old: 41004ea5931d0c0a98f1e1379ccab36b
new: dda00d1aea17a3bf3fdfd6ac8be09fce
127.0.0.1 - - [17/Feb/2017:13:32:08 PST] "GET / HTTP/1.1" 200 381766
- -> /
I, [2017-02-17T13:32:08.523507 #19039]  INFO -- : OntologyPull created a new submission (3) for ontology TEST-ONT-0
.I, [2017-02-17T13:32:09.393378 #19039]  INFO -- : UMLS auto-pull false
.[2017-02-17 13:32:09] INFO  WEBrick 1.3.1
[2017-02-17 13:32:09] INFO  ruby 2.3.3 (2016-11-21) [x86_64-linux]
[2017-02-17 13:32:09] INFO  WEBrick::HTTPServer#start: pid=19039 port=63446
[2017-02-17 13:32:10] INFO  going to shutdown ...
[2017-02-17 13:32:10] INFO  WEBrick::HTTPServer#start done.
[2017-02-17 13:32:13] INFO  WEBrick 1.3.1
I, [2017-02-17T13:32:13.073185 #19039]  INFO -- : UMLS auto-pull false
[2017-02-17 13:32:13] INFO  ruby 2.3.3 (2016-11-21) [x86_64-linux]
[2017-02-17 13:32:13] INFO  WEBrick::HTTPServer#start: pid=19039 port=63446
127.0.0.1 - - [17/Feb/2017:13:32:13 PST] "HEAD / HTTP/1.1" 404 0
- -> /
I, [2017-02-17T13:32:13.131966 #19039]  INFO -- : RemoteFileException: No submission file at pull location http://localhost:63446 for ontology TEST-ONT-0.
[2017-02-17 13:32:13] INFO  going to shutdown ...
[2017-02-17 13:32:13] INFO  WEBrick::HTTPServer#start done.
.[2017-02-17 13:32:19] INFO  going to shutdown ...
[2017-02-17 13:32:19] INFO  WEBrick::HTTPServer#start done.
.I, [2017-02-17T13:32:22.604965 #19039]  INFO -- : Starting processing of http://data.bioontology.org/ontologies/TEST-ONT-1/submissions/1
I, [2017-02-17T13:32:22.715018 #19039]  INFO -- : Logging parsing output to ./test/data/ontology_files/repo/TEST-ONT-1/1/parsing.log
D, [2017-02-17T13:32:29.389729 #19039] DEBUG -- : Exception processing http://data.bioontology.org/ontologies/TEST-ONT-1/submissions/1
E, [2017-02-17T13:32:29.389869 #19039] ERROR -- : No such file or directory @ rb_sysopen - ../../reports/ontologies_report.json
/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontologies_report.rb:105:in `initialize'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontologies_report.rb:105:in `open'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontologies_report.rb:105:in `refresh_report'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:189:in `process_submission'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:47:in `block in process_queue_submissions'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:40:in `each'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:40:in `process_queue_submissions'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/test/test_ontology_submission_parser.rb:92:in `test_parse_submissions'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:869:in `run_test'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1258:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:933:in `block in _run_suite'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:926:in `map'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:926:in `_run_suite'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/test/test_case.rb:82:in `_run_suite'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:907:in `block in _run_suites'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:907:in `map'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:907:in `_run_suites'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/test/test_case.rb:72:in `_run_suites'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:877:in `_run_anything'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1085:in `run_tests'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1072:in `block in _run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1071:in `each'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1071:in `_run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1059:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:27:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:780:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:372:in `block (2 levels) in autorun'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:33:in `run_once'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:371:in `block in autorun'
I, [2017-02-17T13:32:29.390480 #19039]  INFO -- : Starting processing of http://data.bioontology.org/ontologies/TEST-ONT-0/submissions/1
I, [2017-02-17T13:32:29.498807 #19039]  INFO -- : Logging parsing output to ./test/data/ontology_files/repo/TEST-ONT-0/1/parsing.log
D, [2017-02-17T13:32:42.579116 #19039] DEBUG -- : Exception processing http://data.bioontology.org/ontologies/TEST-ONT-0/submissions/1
E, [2017-02-17T13:32:42.579289 #19039] ERROR -- : No such file or directory @ rb_sysopen - ../../reports/ontologies_report.json
/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontologies_report.rb:105:in `initialize'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontologies_report.rb:105:in `open'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontologies_report.rb:105:in `refresh_report'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:189:in `process_submission'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:47:in `block in process_queue_submissions'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:40:in `each'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:40:in `process_queue_submissions'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/test/test_ontology_submission_parser.rb:92:in `test_parse_submissions'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:869:in `run_test'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1258:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:933:in `block in _run_suite'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:926:in `map'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:926:in `_run_suite'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/test/test_case.rb:82:in `_run_suite'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:907:in `block in _run_suites'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:907:in `map'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:907:in `_run_suites'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/test/test_case.rb:72:in `_run_suites'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:877:in `_run_anything'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1085:in `run_tests'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1072:in `block in _run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1071:in `each'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1071:in `_run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1059:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:27:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:780:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:372:in `block (2 levels) in autorun'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:33:in `run_once'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:371:in `block in autorun'
I, [2017-02-17T13:32:42.579941 #19039]  INFO -- : Starting processing of http://data.bioontology.org/ontologies/TEST-ONT-1/submissions/2
I, [2017-02-17T13:32:42.689037 #19039]  INFO -- : Logging parsing output to ./test/data/ontology_files/repo/TEST-ONT-1/2/parsing.log
D, [2017-02-17T13:32:42.784226 #19039] DEBUG -- : Exception processing http://data.bioontology.org/ontologies/TEST-ONT-1/submissions/2
E, [2017-02-17T13:32:42.784357 #19039] ERROR -- : The submission TEST-ONT-1/submissions/2 cannot be indexed because it has not been successfully parsed
/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/bundler/gems/ontologies_linked_data-cf50b5737404/lib/ontologies_linked_data/models/ontology_submission.rb:871:in `process_submission'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:178:in `process_submission'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:47:in `block in process_queue_submissions'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:40:in `each'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:40:in `process_queue_submissions'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/test/test_ontology_submission_parser.rb:92:in `test_parse_submissions'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:869:in `run_test'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1258:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:933:in `block in _run_suite'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:926:in `map'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:926:in `_run_suite'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/test/test_case.rb:82:in `_run_suite'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:907:in `block in _run_suites'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:907:in `map'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:907:in `_run_suites'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/test/test_case.rb:72:in `_run_suites'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:877:in `_run_anything'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1085:in `run_tests'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1072:in `block in _run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1071:in `each'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1071:in `_run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1059:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:27:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:780:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:372:in `block (2 levels) in autorun'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:33:in `run_once'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:371:in `block in autorun'
I, [2017-02-17T13:32:42.789449 #19039]  INFO -- : Starting processing of http://data.bioontology.org/ontologies/TEST-ONT-0/submissions/2
I, [2017-02-17T13:32:42.893950 #19039]  INFO -- : Logging parsing output to ./test/data/ontology_files/repo/TEST-ONT-0/2/parsing.log
D, [2017-02-17T13:32:59.171235 #19039] DEBUG -- : Exception processing http://data.bioontology.org/ontologies/TEST-ONT-0/submissions/2
E, [2017-02-17T13:32:59.171367 #19039] ERROR -- : No such file or directory @ rb_sysopen - ../../reports/ontologies_report.json
/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontologies_report.rb:105:in `initialize'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontologies_report.rb:105:in `open'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontologies_report.rb:105:in `refresh_report'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:189:in `process_submission'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:47:in `block in process_queue_submissions'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:40:in `each'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:40:in `process_queue_submissions'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/test/test_ontology_submission_parser.rb:97:in `test_parse_submissions'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:869:in `run_test'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1258:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:933:in `block in _run_suite'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:926:in `map'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:926:in `_run_suite'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/test/test_case.rb:82:in `_run_suite'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:907:in `block in _run_suites'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:907:in `map'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:907:in `_run_suites'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/test/test_case.rb:72:in `_run_suites'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:877:in `_run_anything'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1085:in `run_tests'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1072:in `block in _run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1071:in `each'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1071:in `_run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1059:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:27:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:780:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:372:in `block (2 levels) in autorun'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:33:in `run_once'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:371:in `block in autorun'
I, [2017-02-17T13:32:59.171985 #19039]  INFO -- : Starting processing of http://data.bioontology.org/ontologies/TEST-ONT-1/submissions/2
I, [2017-02-17T13:32:59.278593 #19039]  INFO -- : Logging parsing output to ./test/data/ontology_files/repo/TEST-ONT-1/2/parsing.log
D, [2017-02-17T13:33:08.780310 #19039] DEBUG -- : Exception processing http://data.bioontology.org/ontologies/TEST-ONT-1/submissions/2
E, [2017-02-17T13:33:08.780441 #19039] ERROR -- : No such file or directory @ rb_sysopen - ../../reports/ontologies_report.json
/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontologies_report.rb:105:in `initialize'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontologies_report.rb:105:in `open'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontologies_report.rb:105:in `refresh_report'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:189:in `process_submission'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:47:in `block in process_queue_submissions'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:40:in `each'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/ontology_submission_parser.rb:40:in `process_queue_submissions'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/test/test_ontology_submission_parser.rb:97:in `test_parse_submissions'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:869:in `run_test'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1258:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:933:in `block in _run_suite'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:926:in `map'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:926:in `_run_suite'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/test/test_case.rb:82:in `_run_suite'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:907:in `block in _run_suites'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:907:in `map'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:907:in `_run_suites'
	/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/test/test_case.rb:72:in `_run_suites'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:877:in `_run_anything'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1085:in `run_tests'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1072:in `block in _run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1071:in `each'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1071:in `_run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/minitest-4.7.5/lib/minitest/unit.rb:1059:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:27:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:780:in `run'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:372:in `block (2 levels) in autorun'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:33:in `run_once'
	/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/test-unit-minitest-0.9.1/lib/test/unit.rb:371:in `block in autorun'
I, [2017-02-17T13:33:09.016850 #19039]  INFO -- : Checking graphs to delete for http://data.bioontology.org/ontologies/TEST-ONT-0
I, [2017-02-17T13:33:09.105513 #19039]  INFO -- : Deleting graph http://data.bioontology.org/ontologies/TEST-ONT-0/submissions/1 ...
I, [2017-02-17T13:33:14.110613 #19039]  INFO -- : Graph http://data.bioontology.org/ontologies/TEST-ONT-0/submissions/1 deleted in 0.004851399 sec.
I, [2017-02-17T13:33:14.110825 #19039]  INFO -- : Checking graphs to delete for http://data.bioontology.org/ontologies/TEST-ONT-1
I, [2017-02-17T13:33:14.190798 #19039]  INFO -- : Deleting graph http://data.bioontology.org/ontologies/TEST-ONT-1/submissions/1 ...
I, [2017-02-17T13:33:19.195340 #19039]  INFO -- : Graph http://data.bioontology.org/ontologies/TEST-ONT-1/submissions/1 deleted in 0.004206363 sec.
I, [2017-02-17T13:33:19.218183 #19039]  INFO -- : finish process_flush_classes
I, [2017-02-17T13:33:19.307068 #19039]  INFO -- : running first page mappings http://data.bioontology.org/ontologies/TEST-ONT-1/submissions/2
I, [2017-02-17T13:33:19.315434 #19039]  INFO -- : done 0
I, [2017-02-17T13:33:19.315496 #19039]  INFO -- : running first page classes http://data.bioontology.org/ontologies/TEST-ONT-1/submissions/2
I, [2017-02-17T13:33:19.360239 #19039]  INFO -- : done 100
I, [2017-02-17T13:33:19.360349 #19039]  INFO -- : running first page mappings http://data.bioontology.org/ontologies/TEST-ONT-0/submissions/2
I, [2017-02-17T13:33:19.368383 #19039]  INFO -- : done 0
I, [2017-02-17T13:33:19.368445 #19039]  INFO -- : running first page classes http://data.bioontology.org/ontologies/TEST-ONT-0/submissions/2
I, [2017-02-17T13:33:19.409951 #19039]  INFO -- : done 100
..D, [2017-02-17T13:33:34.913523 #19039] DEBUG -- : test_scheduled_job_locking -- running in pid 24938
D, [2017-02-17T13:33:34.913636 #24938] DEBUG -- : test_scheduled_job_locking -- Lock acquired
.================================================================================
scheduler caught exception:
test_scheduled_job_locking
/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/mlanett-redis-lock-0.2.7/lib/redis-lock.rb:40:in `lock'
/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/mlanett-redis-lock-0.2.7/lib/redis-lock.rb:234:in `lock'
/srv/jenkins/jobs/NCBO_OntCron_MasterTest/workspace/lib/ncbo_cron/scheduler.rb:50:in `block in scheduled_locking_job'
/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/rufus-scheduler-2.0.24/lib/rufus/sc/jobs.rb:230:in `trigger_block'
/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/rufus-scheduler-2.0.24/lib/rufus/sc/jobs.rb:204:in `block in trigger'
/var/lib/jenkins/.rbenv/versions/2.3.3/lib/ruby/gems/2.3.0/gems/rufus-scheduler-2.0.24/lib/rufus/sc/scheduler.rb:430:in `block in trigger_job'
================================================================================


Finished tests in 125.492891s, 0.0558 tests/s, 0.3905 assertions/s.

7 tests, 49 assertions, 0 failures, 0 errors, 0 skips"
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees

@mdorf mdorf

Labels
bug
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
2 participants
@alexskr @mdorf