Merge branch 'buildwar-fix' into 'master'

file name depends on the version

See merge request !1244
39 jobs for master in 67 minutes and 48 seconds (queued for 16 seconds)
Status Job ID Name Coverage
  Test
failed #198981
test:backend:annotation:jdk-11

01:00:01

failed #198983
test:backend:annotation:jdk-11-hsql

01:00:01

failed #198979
test:backend:annotation:jdk-8

01:00:01

passed #198985
test:backend:CellDesigner_plugin:jdk-8

00:02:08

85.3357%
passed #198978
test:backend:commons:jdk-11

00:01:59

84.4813%
passed #198977
test:backend:commons:jdk-8

00:01:59

84.4813%
passed #198992
test:backend:converter_graphics:jdk-11

00:04:39

73.1101%
passed #198990
test:backend:converter_graphics:jdk-8

00:04:34

73.1159%
passed #198988
test:backend:converter:jdk-11

00:03:26

61.8608%
passed #198987
test:backend:converter:jdk-8

00:01:34

61.8329%
passed #198996
test:backend:converter_SBGNML:jdk-11

00:07:59

88.937%
passed #198998
test:backend:converter_SBGNML:jdk-11-hsql

00:07:49

88.937%
passed #198994
test:backend:converter_SBGNML:jdk-8

00:07:26

88.9358%
passed #199002
test:backend:converter_SBML:jdk-11

00:04:12

89.7379%
passed #198999
test:backend:converter_SBML:jdk-8

00:03:50

89.7366%
passed #199009
test:backend:model_command:jdk-11

00:01:53

75.9544%
passed #199007
test:backend:model_command:jdk-8

00:01:40

75.9643%
passed #199005
test:backend:model:jdk-11

00:05:05

87.5014%
passed #199003
test:backend:model:jdk-8

00:03:07

87.5022%
passed #199013
test:backend:pathvisio:jdk-11

00:03:49

85.3568%
passed #199011
test:backend:pathvisio:jdk-8

00:02:57

85.3588%
passed #199019
test:backend:persist:hsql

00:02:10

88.913%
passed #199017
test:backend:persist:jdk-11

00:02:11

88.913%
passed #199015
test:backend:persist:jdk-8

00:03:57

88.7477%
passed #199025
test:backend:rest:hsql

00:14:28

43.0028%
passed #199023
test:backend:rest:jdk-11

00:16:35

43.0028%
passed #199021
test:backend:rest:jdk-8

00:14:20

42.9964%
failed #199031
test:backend:service:hsql

01:00:01

failed #199029
test:backend:service:jdk-11

01:00:01

failed #199027
test:backend:service:jdk-8

01:00:01

failed #199037
test:backend:web:hsql

00:33:23

failed #199035
test:backend:web:jdk-11

00:32:17

failed #199033
test:backend:web:jdk-8

00:32:18

passed #199039
test:dependency_conflict

00:05:27

passed #198975
test:frontend

00:05:09

85.45%
passed #199041
test:mvn_changelog_version_check

00:00:20

passed #199045
test_postgres_10_compatibility

00:01:34

passed #199046
test_postgres_11_compatibility

00:01:45

passed #199044
test_postgres_9_3_compatibility

00:02:31

 
Name Stage Failure
failed
test:backend:annotation:jdk-11 Test The script exceeded the maximum execution time set for the job
	at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:264)
at java.base/java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.run(ScheduledThreadPoolExecutor.java:304)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1128)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:628)
at java.base/java.lang.Thread.run(Thread.java:834)
2020-09-04 05:21:19,450 DEBUG [main] (AnnotationTestFunctions.java:153) - File without cache: testFiles/target_mirna/target.xml
2020-09-04 05:21:19,478 WARN [main] (BigFileCache.java:517) - File is supposed to be cached but it's not there... http://mirtarbase.mbc.nctu.edu.tw/cache/download/6.1/miRTarBase_SE_WR.xls
2020-09-04 05:21:19,480 WARN [Thread-9] (BigFileCache.java:394) - Missing file: ./minerva-big//21/miRTarBase_SE_WR.xls. Downloaded from: http://mirtarbase.mbc.nctu.edu.tw/cache/download/6.1/miRTarBase_SE_WR.xls
ERROR: Job failed: execution took longer than 1h0m0s seconds
failed
test:backend:service:jdk-11 Test The script exceeded the maximum execution time set for the job
	at lcsb.mapviewer.annotation.cache.BigFileCache$GetHttpFileTask.call(BigFileCache.java:702) ~[annotation-16.0.0~alpha.0.jar:?]
at java.util.concurrent.FutureTask.run(FutureTask.java:264) ~[?:?]
at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.run(ScheduledThreadPoolExecutor.java:304) ~[?:?]
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1128) ~[?:?]
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:628) ~[?:?]
at java.lang.Thread.run(Thread.java:834) ~[?:?]
2020-09-04 05:26:18,797 WARN [main] (BigFileCache.java:517) - File is supposed to be cached but it's not there... http://mirtarbase.mbc.nctu.edu.tw/cache/download/6.1/miRTarBase_SE_WR.xls
2020-09-04 05:26:18,799 WARN [Thread-4] (BigFileCache.java:394) - Missing file: ./minerva-big//56/miRTarBase_SE_WR.xls. Downloaded from: http://mirtarbase.mbc.nctu.edu.tw/cache/download/6.1/miRTarBase_SE_WR.xls
ERROR: Job failed: execution took longer than 1h0m0s seconds
failed
test:backend:annotation:jdk-11-hsql Test The script exceeded the maximum execution time set for the job
	at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:264)
at java.base/java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.run(ScheduledThreadPoolExecutor.java:304)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1128)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:628)
at java.base/java.lang.Thread.run(Thread.java:834)
2020-09-04 05:21:18,810 DEBUG [main] (AnnotationTestFunctions.java:153) - File without cache: testFiles/target_mirna/target.xml
2020-09-04 05:21:18,828 WARN [main] (BigFileCache.java:517) - File is supposed to be cached but it's not there... http://mirtarbase.mbc.nctu.edu.tw/cache/download/6.1/miRTarBase_SE_WR.xls
2020-09-04 05:21:18,830 WARN [Thread-2] (BigFileCache.java:394) - Missing file: ./minerva-big//45/miRTarBase_SE_WR.xls. Downloaded from: http://mirtarbase.mbc.nctu.edu.tw/cache/download/6.1/miRTarBase_SE_WR.xls
ERROR: Job failed: execution took longer than 1h0m0s seconds
failed
test:backend:web:jdk-8 Test
[ERROR] Please refer to dump files (if any exist) [date].dump, [date]-jvmRun[N].dump and [date].dumpstream.
[ERROR] -> [Help 1]
[ERROR]
[ERROR] To see the full stack trace of the errors, re-run Maven with the -e switch.
[ERROR] Re-run Maven using the -X switch to enable full debug logging.
[ERROR]
[ERROR] For more information about the errors and possible solutions, please read the following articles:
[ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/MojoFailureException
ERROR: Job failed: exit code 1
failed
test:backend:web:hsql Test
[ERROR] Please refer to dump files (if any exist) [date].dump, [date]-jvmRun[N].dump and [date].dumpstream.
[ERROR] -> [Help 1]
[ERROR]
[ERROR] To see the full stack trace of the errors, re-run Maven with the -e switch.
[ERROR] Re-run Maven using the -X switch to enable full debug logging.
[ERROR]
[ERROR] For more information about the errors and possible solutions, please read the following articles:
[ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/MojoFailureException
ERROR: Job failed: exit code 1
failed
test:backend:service:hsql Test The script exceeded the maximum execution time set for the job
2020-09-04 05:26:01,409  WARN [main] (ChemicalTargetDtoConverter.java:37) - Cannot find hgnc symbol for uniprot: [bqbiol:isDescribedBy] UNIPROT:Q9UE69
2020-09-04 05:26:01,418 WARN [main] (ChemicalTargetDtoConverter.java:37) - Cannot find hgnc symbol for uniprot: [bqbiol:isDescribedBy] UNIPROT:O33199
2020-09-04 05:26:01,539 WARN [main] (ChemicalTargetDtoConverter.java:37) - Cannot find hgnc symbol for uniprot: [bqbiol:isDescribedBy] UNIPROT:O33199
2020-09-04 05:26:01,557 DEBUG [main] (DrugService.java:246) - Caching drug queries...
2020-09-04 05:26:01,583 ERROR [pool-560-thread-1] (WebPageDownloader.java:131) - Problem with fetching url (3 tries): https://dapi.lcsb.uni.lu/api/users/isAuthenticated
2020-09-04 05:26:02,362 DEBUG [main] (ChemicalService.java:126) - Caching chemical queries...
2020-09-04 05:26:02,369 WARN [main] (BigFileCache.java:517) - File is supposed to be cached but it's not there... http://mirtarbase.mbc.nctu.edu.tw/cache/download/6.1/miRTarBase_SE_WR.xls
2020-09-04 05:26:02,371 WARN [Thread-4] (BigFileCache.java:394) - Missing file: ./minerva-big//70/miRTarBase_SE_WR.xls. Downloaded from: http://mirtarbase.mbc.nctu.edu.tw/cache/download/6.1/miRTarBase_SE_WR.xls
ERROR: Job failed: execution took longer than 1h0m0s seconds
failed
test:backend:annotation:jdk-8 Test The script exceeded the maximum execution time set for the job
	at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.access$201(ScheduledThreadPoolExecutor.java:180)
at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.run(ScheduledThreadPoolExecutor.java:293)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
at java.lang.Thread.run(Thread.java:748)
2020-09-04 05:20:57,516 DEBUG [main] (AnnotationTestFunctions.java:153) - File without cache: testFiles/target_mirna/target.xml
2020-09-04 05:20:57,540 WARN [main] (BigFileCache.java:517) - File is supposed to be cached but it's not there... http://mirtarbase.mbc.nctu.edu.tw/cache/download/6.1/miRTarBase_SE_WR.xls
2020-09-04 05:20:57,542 WARN [Thread-3] (BigFileCache.java:394) - Missing file: ./minerva-big//51/miRTarBase_SE_WR.xls. Downloaded from: http://mirtarbase.mbc.nctu.edu.tw/cache/download/6.1/miRTarBase_SE_WR.xls
ERROR: Job failed: execution took longer than 1h0m0s seconds
failed
test:backend:service:jdk-8 Test The script exceeded the maximum execution time set for the job
	at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.access$201(ScheduledThreadPoolExecutor.java:180) ~[?:1.8.0_212]
at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.run(ScheduledThreadPoolExecutor.java:293) ~[?:1.8.0_212]
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149) ~[?:1.8.0_212]
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624) ~[?:1.8.0_212]
at java.lang.Thread.run(Thread.java:748) ~[?:1.8.0_212]
2020-09-04 05:24:35,884 DEBUG [main] (MiRNAService.java:138) - check mirna target: [[bqbiol:isDescribedBy] ENTREZ:7415:lcsb.mapviewer.annotation.services.annotators.HgncAnnotator]
2020-09-04 05:24:35,889 WARN [main] (BigFileCache.java:517) - File is supposed to be cached but it's not there... http://mirtarbase.mbc.nctu.edu.tw/cache/download/6.1/miRTarBase_SE_WR.xls
2020-09-04 05:24:35,891 WARN [Thread-5] (BigFileCache.java:394) - Missing file: ./minerva-big//57/miRTarBase_SE_WR.xls. Downloaded from: http://mirtarbase.mbc.nctu.edu.tw/cache/download/6.1/miRTarBase_SE_WR.xls
ERROR: Job failed: execution took longer than 1h0m0s seconds
failed
test:backend:web:jdk-11 Test
[ERROR] Please refer to dump files (if any exist) [date].dump, [date]-jvmRun[N].dump and [date].dumpstream.
[ERROR] -> [Help 1]
[ERROR]
[ERROR] To see the full stack trace of the errors, re-run Maven with the -e switch.
[ERROR] Re-run Maven using the -X switch to enable full debug logging.
[ERROR]
[ERROR] For more information about the errors and possible solutions, please read the following articles:
[ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/MojoFailureException
ERROR: Job failed: exit code 1