Merge branch 'ucsc-issues' into 'devel_15.1.x'

Ucsc issues

See merge request !1362
34 jobs for devel_15.1.x in 60 minutes and 2 seconds (queued for 12 seconds)
Status Name Job ID Coverage
  Test
failed test:backend:annotation:jdk-11 #306903

01:00:01

failed test:backend:annotation:jdk-8 #306899

01:00:01

passed test:backend:CellDesigner_plugin:jdk-8 #306906

00:04:23

86.3958%
passed test:backend:commons:jdk-11 #306896

00:02:18

84.4813%
passed test:backend:commons:jdk-8 #306894

00:02:20

84.4813%
failed test:backend:converter_CellDesigner:jdk-11 #306919

00:22:13

failed test:backend:converter_CellDesigner:jdk-8 #306915

00:00:42

passed test:backend:converter_graphics:jdk-11 #306926

00:02:37

73.2%
passed test:backend:converter_graphics:jdk-8 #306921

00:01:58

73.2059%
passed test:backend:converter:jdk-11 #306912

00:01:16

62.1311%
passed test:backend:converter:jdk-8 #306909

00:03:07

61.8329%
passed test:backend:converter_SBGNML:jdk-11 #306931

00:05:12

88.9947%
passed test:backend:converter_SBGNML:jdk-8 #306929

00:03:01

88.9934%
failed test:backend:converter_SBML:jdk-11 #306937

00:14:45

failed test:backend:converter_SBML:jdk-8 #306934

00:20:04

passed test:backend:model_command:jdk-11 #306950

00:01:15

76.1665%
passed test:backend:model_command:jdk-8 #306947

00:01:04

76.1764%
passed test:backend:model:jdk-11 #306942

00:01:30

87.4831%
passed test:backend:model:jdk-8 #306940

00:01:29

87.4838%
passed test:backend:pathvisio:jdk-11 #306957

00:01:49

85.3568%
passed test:backend:pathvisio:jdk-8 #306954

00:01:10

85.3588%
passed test:backend:persist:jdk-11 #306963

00:02:30

90.7628%
passed test:backend:persist:jdk-8 #306960

00:02:22

90.7806%
passed test:backend:rest:jdk-11 #306969

00:06:52

44.3053%
passed test:backend:rest:jdk-8 #306966

00:05:27

44.299%
passed test:backend:service:jdk-11 #306973

00:07:49

62.4109%
passed test:backend:service:jdk-8 #306970

00:09:09

62.4093%
passed test:backend:web:jdk-11 #306979

00:12:58

47.5367%
passed test:backend:web:jdk-8 #306976

00:11:06

47.5367%
passed test:dependency_conflict #306983

00:04:45

passed test:frontend #306892

00:02:27

85.49%
passed test_postgres_10_compatibility #306990

00:01:16

passed test_postgres_11_compatibility #306993

00:02:32

passed test_postgres_9_3_compatibility #306987

00:02:07

 
Name Stage Failure
failed
test:backend:annotation:jdk-11 Test The script exceeded the maximum execution time set for the job
2021-10-26 05:01:38,837  INFO [main] (HikariDataSource.java:352) - HikariPool-7 - Shutdown completed.
2021-10-26 05:01:38,986 INFO [main] (HikariDataSource.java:110) - HikariPool-8 - Starting...
2021-10-26 05:01:38,994 INFO [main] (HikariDataSource.java:123) - HikariPool-8 - Start completed.
2021-10-26 05:01:41,419 INFO [main] (Slf4jLog.java:49) - Database: jdbc:postgresql://postgres:5432/map_viewer (PostgreSQL 9.6)
2021-10-26 05:01:41,632 INFO [main] (Slf4jLog.java:49) - Current version of schema "public": 15.1.0.20200814
2021-10-26 05:01:41,632 WARN [main] (Slf4jLog.java:53) - outOfOrder mode is active. Migration of schema "public" may not be reproducible.
2021-10-26 05:01:41,633 INFO [main] (Slf4jLog.java:49) - Schema "public" is up to date. No migration necessary.
2021-10-26 05:02:11,850 ERROR [pool-717-thread-1] (WebPageDownloader.java:131) - Problem with fetching url (3 tries): http://www.cazy.org/search?page=recherche&recherche=A8MCI6&tag=10
ERROR: Job failed: execution took longer than 1h0m0s seconds

failed
test:backend:converter_CellDesigner:jdk-8 Test There has been a runner system failure, please try again
[INFO] 
[INFO] --- maven-dependency-plugin:2.8:purge-local-repository (default-cli) @ frontend-js ---
[INFO]
[INFO] -------------------------< lcsb.mapviewer:web >-------------------------
[INFO] Building Mapviewer web interface 1.0 [16/17]
[INFO] --------------------------------[ war ]---------------------------------
[INFO]
[INFO] --- maven-dependency-plugin:3.1.1:purge-local-repository (default-cli) @ web ---
ERROR: Job failed (system failure): aborted: terminated

failed
test:backend:converter_SBML:jdk-8 Test There has been a runner system failure, please try again
	at java.net.AbstractPlainSocketImpl.doConnect(AbstractPlainSocketImpl.java:350)
at java.net.AbstractPlainSocketImpl.connectToAddress(AbstractPlainSocketImpl.java:206)
at java.net.AbstractPlainSocketImpl.connect(AbstractPlainSocketImpl.java:188)
at java.net.SocksSocketImpl.connect(SocksSocketImpl.java:392)
at java.net.Socket.connect(Socket.java:589)
at org.apache.http.conn.socket.PlainConnectionSocketFactory.connectSocket(PlainConnectionSocketFactory.java:75)
at org.apache.http.impl.conn.DefaultHttpClientConnectionOperator.connect(DefaultHttpClientConnectionOperator.java:142)
... 48 more
ERROR: Job failed (system failure): aborted: terminated

failed
test:backend:converter_SBML:jdk-11 Test There has been a runner system failure, please try again
	at java.base/java.net.AbstractPlainSocketImpl.doConnect(AbstractPlainSocketImpl.java:399)
at java.base/java.net.AbstractPlainSocketImpl.connectToAddress(AbstractPlainSocketImpl.java:242)
at java.base/java.net.AbstractPlainSocketImpl.connect(AbstractPlainSocketImpl.java:224)
at java.base/java.net.SocksSocketImpl.connect(SocksSocketImpl.java:403)
at java.base/java.net.Socket.connect(Socket.java:591)
at org.apache.http.conn.socket.PlainConnectionSocketFactory.connectSocket(PlainConnectionSocketFactory.java:75)
at org.apache.http.impl.conn.DefaultHttpClientConnectionOperator.connect(DefaultHttpClientConnectionOperator.java:142)
... 48 more
ERROR: Job failed (system failure): aborted: terminated

failed
test:backend:converter_CellDesigner:jdk-11 Test There has been a runner system failure, please try again
	at java.base/java.net.AbstractPlainSocketImpl.doConnect(AbstractPlainSocketImpl.java:399)
at java.base/java.net.AbstractPlainSocketImpl.connectToAddress(AbstractPlainSocketImpl.java:242)
at java.base/java.net.AbstractPlainSocketImpl.connect(AbstractPlainSocketImpl.java:224)
at java.base/java.net.SocksSocketImpl.connect(SocksSocketImpl.java:403)
at java.base/java.net.Socket.connect(Socket.java:591)
at org.apache.http.conn.socket.PlainConnectionSocketFactory.connectSocket(PlainConnectionSocketFactory.java:75)
at org.apache.http.impl.conn.DefaultHttpClientConnectionOperator.connect(DefaultHttpClientConnectionOperator.java:142)
... 55 more
ERROR: Job failed (system failure): aborted: terminated

failed
test:backend:annotation:jdk-8 Test The script exceeded the maximum execution time set for the job
	at lcsb.mapviewer.annotation.cache.CachableInterface.getWebPageContent(CachableInterface.java:200)
at lcsb.mapviewer.annotation.services.annotators.CazyAnnotator.uniprotToCazy(CazyAnnotator.java:186)
... 57 more
Caused by: java.util.concurrent.TimeoutException
at java.util.concurrent.FutureTask.get(FutureTask.java:205)
at lcsb.mapviewer.annotation.cache.WebPageDownloader.getFromNetwork(WebPageDownloader.java:154)
... 60 more
2021-10-26 05:01:48,335 ERROR [pool-797-thread-1] (WebPageDownloader.java:131) - Problem with fetching url (3 tries): http://www.cazy.org/search?page=recherche&recherche=Q00012&tag=10
ERROR: Job failed: execution took longer than 1h0m0s seconds