Merge branch '1141-transcription-site-should-have-color' into 'master'

Resolve "Transcription site should have color"

Closes #1141

See merge request !1391
42 jobs for master in 60 minutes and 3 seconds (queued for 6 seconds)
Status Name Job ID Coverage
  Test
failed test:backend:annotation:jdk-11 #320886

01:00:01

failed test:backend:annotation:jdk-11-hsql #320889

01:00:01

failed test:backend:annotation:jdk-8 #320882

01:00:01

passed test:backend:CellDesigner_plugin:jdk-8 #320892

00:01:49

85.1653%
passed test:backend:commons:jdk-11 #320878

00:01:49

73.8722%
passed test:backend:commons:jdk-8 #320874

00:01:29

73.8722%
passed test:backend:converter_CellDesigner:jdk-11 #320904

00:01:28

95.8354%
passed test:backend:converter_CellDesigner:jdk-8 #320901

00:02:20

95.8048%
passed test:backend:converter_graphics:jdk-11 #320910

00:01:43

75.9704%
passed test:backend:converter_graphics:jdk-8 #320906

00:01:41

75.9761%
passed test:backend:converter:jdk-11 #320898

00:01:12

66.2681%
passed test:backend:converter:jdk-8 #320895

00:01:16

66.2681%
passed test:backend:converter_SBGNML:jdk-11 #320915

00:05:51

89.0348%
passed test:backend:converter_SBGNML:jdk-11-hsql #320918

00:02:49

89.0348%
passed test:backend:converter_SBGNML:jdk-8 #320913

00:02:58

89.0336%
passed test:backend:converter_SBML:jdk-11 #320923

00:01:48

91.0443%
passed test:backend:converter_SBML:jdk-8 #320920

00:03:00

91.0433%
passed test:backend:model_command:jdk-11 #320935

00:01:01

76.839%
passed test:backend:model_command:jdk-8 #320932

00:01:23

76.8493%
passed test:backend:model:jdk-11 #320929

00:01:01

80.5513%
passed test:backend:model:jdk-8 #320926

00:01:02

80.5528%
passed test:backend:pathvisio:jdk-11 #320942

00:02:15

85.3904%
passed test:backend:pathvisio:jdk-8 #320939

00:01:36

85.3924%
passed test:backend:persist:hsql #320951

00:01:50

70.3058%
passed test:backend:persist:jdk-11 #320948

00:01:15

70.3058%
passed test:backend:persist:jdk-8 #320945

00:01:16

70.1601%
passed test:backend:rest:hsql #320959

00:01:04

3.36272%
passed test:backend:rest:jdk-11 #320956

00:01:59

3.36272%
passed test:backend:rest:jdk-8 #320953

00:01:53

3.36403%
failed test:backend:service:hsql #320966

00:06:47

failed test:backend:service:jdk-11 #320965

00:05:41

failed test:backend:service:jdk-8 #320962

00:06:01

failed test:backend:web:hsql #320972

00:14:33

failed test:backend:web:jdk-11 #320970

00:14:23

failed test:backend:web:jdk-8 #320968

00:12:55

passed test:code_validation #320976

00:03:45

passed test:dependency_conflict #320974

00:04:11

passed test:frontend #320871

00:01:55

84.5%
passed test:mvn_changelog_version_check #320978

00:00:30

passed test_postgres_10_compatibility #320982

00:02:57

passed test_postgres_11_compatibility #320984

00:01:48

passed test_postgres_9_3_compatibility #320981

00:03:43

 
Name Stage Failure
failed
test:backend:annotation:jdk-8 Test The script exceeded the maximum execution time set for the job
2021-12-07 05:02:22,759  INFO [main] (CustomDatabasePopulator.java:43) - Additional SQL scripts located at: ${database.pathToDataScripts}
2021-12-07 05:02:22,760 INFO [main] (Slf4jLog.java:49) - Database: jdbc:hsqldb:mem:dapi (HSQL Database Engine 2.5)
2021-12-07 05:02:22,761 WARN [main] (Slf4jLog.java:53) - Flyway upgrade recommended: HSQLDB 2.5 is newer than this version of Flyway and support has not been tested.
2021-12-07 05:02:22,763 WARN [main] (Slf4jLog.java:53) - Skipping filesystem location:${database.pathToDataScripts} (not found)
2021-12-07 05:02:22,789 INFO [main] (Slf4jLog.java:49) - Current version of schema "PUBLIC": 16.1.0.20211115
2021-12-07 05:02:22,789 WARN [main] (Slf4jLog.java:53) - outOfOrder mode is active. Migration of schema "PUBLIC" may not be reproducible.
2021-12-07 05:02:22,790 INFO [main] (Slf4jLog.java:49) - Schema "PUBLIC" is up to date. No migration necessary.
2021-12-07 05:02:53,321 ERROR [pool-721-thread-1] (WebPageDownloader.java:137) - 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:service:jdk-11 Test
[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
Cleaning up project directory and file based variables
ERROR: Job failed: exit code 1

failed
test:backend:service:hsql Test
[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
Cleaning up project directory and file based variables
ERROR: Job failed: exit code 1

failed
test:backend:annotation:jdk-11-hsql Test The script exceeded the maximum execution time set for the job
	at lcsb.mapviewer.annotation.cache.CachableInterface.getWebPageContent(CachableInterface.java:227)
at lcsb.mapviewer.annotation.cache.CachableInterface.getWebPageContent(CachableInterface.java:200)
at lcsb.mapviewer.annotation.services.annotators.CazyAnnotator.uniprotToCazy(CazyAnnotator.java:186)
... 41 more
Caused by: java.util.concurrent.TimeoutException
at java.base/java.util.concurrent.FutureTask.get(FutureTask.java:204)
at lcsb.mapviewer.annotation.cache.WebPageDownloader.getFromNetwork(WebPageDownloader.java:160)
... 44 more
ERROR: Job failed: execution took longer than 1h0m0s seconds

failed
test:backend:web:jdk-8 Test
[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
Cleaning up project directory and file based variables
ERROR: Job failed: exit code 1

failed
test:backend:web:jdk-11 Test
[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
Cleaning up project directory and file based variables
ERROR: Job failed: exit code 1

failed
test:backend:service:jdk-8 Test
[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
Cleaning up project directory and file based variables
ERROR: Job failed: exit code 1

failed
test:backend:web:hsql Test
[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
Cleaning up project directory and file based variables
ERROR: Job failed: exit code 1

failed
test:backend:annotation:jdk-11 Test The script exceeded the maximum execution time set for the job
	at lcsb.mapviewer.annotation.cache.CachableInterface.getWebPageContent(CachableInterface.java:227)
at lcsb.mapviewer.annotation.cache.CachableInterface.getWebPageContent(CachableInterface.java:200)
at lcsb.mapviewer.annotation.services.annotators.CazyAnnotator.uniprotToCazy(CazyAnnotator.java:186)
... 41 more
Caused by: java.util.concurrent.TimeoutException
at java.base/java.util.concurrent.FutureTask.get(FutureTask.java:204)
at lcsb.mapviewer.annotation.cache.WebPageDownloader.getFromNetwork(WebPageDownloader.java:160)
... 44 more
ERROR: Job failed: execution took longer than 1h0m0s seconds