Unable to start Sakai
Markus Stetschnig
I am trying to setup an Sakai development environment. There are errors
when starting up tomcat and at 127.0.0.1:8080 i see 404 instead of the
portal.
The database got populated with tables and data automatically.
mysql> show tables;
+--------------------------------+
| Tables_in_sakai |
+--------------------------------+
| ANNOUNCEMENT_CHANNEL |
| ANNOUNCEMENT_MESSAGE |
| ASN_AP_ITEM_ACCESS_T |
| ASN_AP_ITEM_T |
| ASN_ASSIGNMENT |
At tomcat/conf/context.xml i commented out the default <WatchedResource>
blocks. Is this right? As i think this caused me another error.
Environment:
- Linux Mint 20
- Tomcat 9.0.44
- MySQL 5.7.33 (docker)
- MySQL Connector /J 5.1.48
- JAVA 1.8.0_282 (from apt)
I attached the sakai.properties, sentenv.sh and log files.
Does anyone know what could cause this problem?
Thanks in advance!
Greetings
Markus Stetschnig
Miguel Pellicer
Apparently your instance is starting up fine before faces this error:
12-Mar-2021 12:42:40.405 SEVERE [Thread-19]
org.apache.catalina.loader.WebappClassLoaderBase.checkThreadLocalMapForLeaks
The web application [mailsender-tool] created a ThreadLocal with key of
type [uk.org.ponder.saxalizer.support.SAXalXMLProvider$1] (value
[uk.org.ponder.saxalizer.support.SAXalXMLProvider$1@46495e7f]) and a
value of type [uk.org.ponder.saxalizer.SAXalizerHelper] (value
[uk.org.ponder.saxalizer.SAXalizerHelper@64d117e7]) but failed to remove
it when the web application was stopped. Threads are going to be renewed
over time to try and avoid a probable memory leak.
12-Mar-2021 12:42:40.817 SEVERE [Thread-19]
org.apache.catalina.loader.WebappClassLoaderBase.checkThreadLocalMapForLeaks
The web application [accountvalidator] created a ThreadLocal with key of
type [uk.org.ponder.saxalizer.support.SAXalXMLProvider$1] (value
[uk.org.ponder.saxalizer.support.SAXalXMLProvider$1@5b31a848]) and a
value of type [uk.org.ponder.saxalizer.SAXalizerHelper] (value
[uk.org.ponder.saxalizer.SAXalizerHelper@39199c0]) but failed to remove
it when the web application was stopped. Threads are going to be renewed
over time to try and avoid a probable memory leak.
12-Mar-2021 12:42:40.925 SEVERE [Thread-19]
org.apache.catalina.loader.WebappClassLoaderBase.checkThreadLocalMapForLeaks
The web application [sakai-reset-pass] created a ThreadLocal with key of
type [uk.org.ponder.saxalizer.support.SAXalXMLProvider$1] (value
[uk.org.ponder.saxalizer.support.SAXalXMLProvider$1@dc026de]) and a
value of type [uk.org.ponder.saxalizer.SAXalizerHelper] (value
[uk.org.ponder.saxalizer.SAXalizerHelper@3d473b33]) but failed to remove
it when the web application was stopped. Threads are going to be renewed
over time to try and avoid a probable memory leak.
12-Mar-2021 12:42:41.276 SEVERE [Thread-19]
org.apache.catalina.loader.WebappClassLoaderBase.checkThreadLocalMapForLeaks
The web application [sakai-site-pageorder-helper] created a ThreadLocal
with key of type [uk.org.ponder.saxalizer.support.SAXalXMLProvider$1]
(value [uk.org.ponder.saxalizer.support.SAXalXMLProvider$1@30d503a]) and
a value of type [uk.org.ponder.saxalizer.SAXalizerHelper] (value
[uk.org.ponder.saxalizer.SAXalizerHelper@b0bb25f]) but failed to remove
it when the web application was stopped. Threads are going to be renewed
over time to try and avoid a probable memory leak.
12-Mar-2021 12:42:41.328 SEVERE [Thread-19]
org.apache.catalina.loader.WebappClassLoaderBase.checkThreadLocalMapForLeaks
The web application [emailtemplateservice-tool] created a ThreadLocal
with key of type [uk.org.ponder.saxalizer.support.SAXalXMLProvider$1]
(value [uk.org.ponder.saxalizer.support.SAXalXMLProvider$1@2841e48a])
and a value of type [uk.org.ponder.saxalizer.SAXalizerHelper] (value
[uk.org.ponder.saxalizer.SAXalizerHelper@658631a7]) but failed to remove
it when the web application was stopped. Threads are going to be renewed
over time to try and avoid a probable memory leak.
12-Mar-2021 12:42:41.477 SEVERE [Thread-19]
org.apache.catalina.loader.WebappClassLoaderBase.checkThreadLocalMapForLeaks
The web application [samigo-app] created a ThreadLocal with key of type
[uk.org.ponder.saxalizer.support.SAXalXMLProvider$1] (value
[uk.org.ponder.saxalizer.support.SAXalXMLProvider$1@43d27ef3]) and a
value of type [uk.org.ponder.saxalizer.SAXalizerHelper] (value
[uk.org.ponder.saxalizer.SAXalizerHelper@3e2bdab2]) but failed to remove
it when the web application was stopped. Threads are going to be renewed
over time to try and avoid a probable memory leak.
12-Mar-2021 12:42:42.656 WARNING [Thread-19]
org.apache.catalina.loader.WebappClassLoaderBase.clearReferencesThreads
The web application [sakai-calendar-connector] appears to have started a
thread named [Sakai.SessionComponent.Maintenance] but has failed to stop
it. This is very likely to create a memory leak. Stack trace of thread:
java.lang.Thread.sleep(Native Method)
org.sakaiproject.tool.impl.SessionComponent$Maintenance.run(SessionComponent.java:600)
java.lang.Thread.run(Thread.java:748)
12-Mar-2021 12:42:42.657 WARNING [Thread-19]
org.apache.catalina.loader.WebappClassLoaderBase.clearReferencesThreads
The web application [sakai-calendar-connector] appears to have started a
thread named [FileWatchdog] but has failed to stop it. This is very
likely to create a memory leak. Stack trace of thread:
java.lang.Thread.sleep(Native Method)
org.apache.log4j.helpers.FileWatchdog.run(FileWatchdog.java:104)
12-Mar-2021 12:42:42.658 WARNING [Thread-19]
org.apache.catalina.loader.WebappClassLoaderBase.clearReferencesThreads
The web application [sakai-calendar-connector] appears to have started a
thread named [sakai housekeeper] but has failed to stop it. This is very
likely to create a memory leak. Stack trace of thread:
sun.misc.Unsafe.park(Native Method)
java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:215)
java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.awaitNanos(AbstractQueuedSynchronizer.java:2078)
java.util.concurrent.ScheduledThreadPoolExecutor$DelayedWorkQueue.take(ScheduledThreadPoolExecutor.java:1093)
java.util.concurrent.ScheduledThreadPoolExecutor$DelayedWorkQueue.take(ScheduledThreadPoolExecutor.java:809)
java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1074)
java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1134)
java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
java.lang.Thread.run(Thread.java:748)
Could you try assigning more memory? Like -Xmx4g
Regards
-----------------------------------------------
Miguel Pellicer
CTO at EDF
Website: https://www.edf.global
LinkedIn: https://www.linkedin.com/in/mpellicer-edf
Office Phone: +34 - 96 381 35 75
Request a meeting here: https://calendly.com/mpellicer
-----------------------------------------------
Markus Stetschnig
This looks a lot better already, but i still get 404 on 127.0.0.1:8080...
What could that be?
Best regards
Markus
Miguel Pellicer
well.
Could you try http://localhost:8080/portal or http://127.0.0.1:8080/portal
Miguel
Markus Stetschnig
I totally forgot that. Meanwhile i wrote a Script to set it up and had
the same result...
At least something useful came out of the error search haha
Thanks Miguel!
Best regards
Miguel Pellicer
Could you paste your catalina.out file? It may reveal more than this file.
What version of Sakai are you trying to install?
Thanks
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Miguel Pellicer
You cannot connect to your MariaDB instance.
Sakai does not support MariaDB officially, however, it does work, I'm running one MariaDB instance, check your DB configuration:
16-Feb-2022 07:05:11.064 [31mERROR [m [main]
c.z.h.p.HikariPool.throwPoolInitializationException sakai -
Exception during pool initialization.
java.sql.SQLTransientConnectionException: Could not connect to
address=(host=127.0.0.1)(port=3306)(type=master) : RSA public key
is not available client side (option serverRsaPublicKeyFile not
set)
at
org.mariadb.jdbc.internal.util.exceptions.ExceptionFactory.createException(ExceptionFactory.java:79)
~[mariadb-java-client-2.7.5.jar:?]
at
org.mariadb.jdbc.internal.util.exceptions.ExceptionFactory.create(ExceptionFactory.java:197)
~[mariadb-java-client-2.7.5.jar:?]
at
org.mariadb.jdbc.internal.protocol.AbstractConnectProtocol.connectWithoutProxy(AbstractConnectProtocol.java:1394)
~[mariadb-java-client-2.7.5.jar:?]
at
org.mariadb.jdbc.internal.util.Utils.retrieveProxy(Utils.java:635)
~[mariadb-java-client-2.7.5.jar:?]
at
org.mariadb.jdbc.MariaDbConnection.newConnection(MariaDbConnection.java:150)
~[mariadb-java-client-2.7.5.jar:?]
at org.mariadb.jdbc.Driver.connect(Driver.java:89)
~[mariadb-java-client-2.7.5.jar:?]
at
com.zaxxer.hikari.util.DriverDataSource.getConnection(DriverDataSource.java:138)
~[HikariCP-4.0.3.jar:?]
at
com.zaxxer.hikari.pool.PoolBase.newConnection(PoolBase.java:364)
~[HikariCP-4.0.3.jar:?]
at
com.zaxxer.hikari.pool.PoolBase.newPoolEntry(PoolBase.java:206)
~[HikariCP-4.0.3.jar:?]
at
com.zaxxer.hikari.pool.HikariPool.createPoolEntry(HikariPool.java:476)
~[HikariCP-4.0.3.jar:?]
at
com.zaxxer.hikari.pool.HikariPool.checkFailFast(HikariPool.java:561)
~[HikariCP-4.0.3.jar:?]
at
com.zaxxer.hikari.pool.HikariPool.<init>(HikariPool.java:115)
~[HikariCP-4.0.3.jar:?]
at
com.zaxxer.hikari.HikariDataSource.getConnection(HikariDataSource.java:112)
~[HikariCP-4.0.3.jar:?]
at
org.springframework.jdbc.datasource.LazyConnectionDataSourceProxy.afterPropertiesSet(LazyConnectionDataSourceProxy.java:164)
~[spring-jdbc-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.invokeInitMethods(AbstractAutowireCapableBeanFactory.java:1863)
~[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.initializeBean(AbstractAutowireCapableBeanFactory.java:1800)
~[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:620)
~[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:542)
~[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.AbstractBeanFactory.lambda$doGetBean$0(AbstractBeanFactory.java:335)
~[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:234)
~[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:333)
~[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:208)
~[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveReference(BeanDefinitionValueResolver.java:330)
~[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.BeanDefinitionValueResolver.resolveValueIfNecessary(BeanDefinitionValueResolver.java:113)
~[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.applyPropertyValues(AbstractAutowireCapableBeanFactory.java:1707)
~[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.populateBean(AbstractAutowireCapableBeanFactory.java:1452)
~[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:619)
~[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:542)
~[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.AbstractBeanFactory.lambda$doGetBean$0(AbstractBeanFactory.java:335)
~[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:234)
[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:333)
[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:208)
[spring-beans-5.3.14.jar:5.3.14]
at
org.springframework.context.support.AbstractApplicationContext.getBean(AbstractApplicationContext.java:1154)
[spring-context-5.3.14.jar:5.3.14]
at
org.springframework.context.support.AbstractApplicationContext.finishBeanFactoryInitialization(AbstractApplicationContext.java:908)
[spring-context-5.3.14.jar:5.3.14]
at
org.springframework.context.support.AbstractApplicationContext.refresh(AbstractApplicationContext.java:583)
[spring-context-5.3.14.jar:5.3.14]
at
org.sakaiproject.component.impl.SpringCompMgr.init(SpringCompMgr.java:164)
[sakai-component-manager-23-SNAPSHOT.jar:23-SNAPSHOT]
at
org.sakaiproject.component.cover.ComponentManager.getInstance(ComponentManager.java:115)
[sakai-component-manager-23-SNAPSHOT.jar:23-SNAPSHOT]
at
org.sakaiproject.component.impl.SakaiContextLoader.loadParentContext(SakaiContextLoader.java:97)
[sakai-component-manager-23-SNAPSHOT.jar:23-SNAPSHOT]
at
org.springframework.web.context.ContextLoader.initWebApplicationContext(ContextLoader.java:289)
[spring-web-5.3.14.jar:5.3.14]
at
org.sakaiproject.util.SakaiContextLoaderListener.contextInitialized(SakaiContextLoaderListener.java:56)
[sakai-component-manager-23-SNAPSHOT.jar:23-SNAPSHOT]
at
org.apache.catalina.core.StandardContext.listenerStart(StandardContext.java:4768)
[catalina.jar:9.0.58]
at
org.apache.catalina.core.StandardContext.startInternal(StandardContext.java:5230)
[catalina.jar:9.0.58]
at
org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:183)
[catalina.jar:9.0.58]
at
org.apache.catalina.core.ContainerBase.addChildInternal(ContainerBase.java:726)
[catalina.jar:9.0.58]
at
org.apache.catalina.core.ContainerBase.addChild(ContainerBase.java:698)
[catalina.jar:9.0.58]
at
org.apache.catalina.core.StandardHost.addChild(StandardHost.java:696)
[catalina.jar:9.0.58]
at
org.apache.catalina.startup.HostConfig.deployWAR(HostConfig.java:1024)
[catalina.jar:9.0.58]
at
org.apache.catalina.startup.HostConfig$DeployWar.run(HostConfig.java:1911)
[catalina.jar:9.0.58]
at
java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:515)
[?:?]
at java.util.concurrent.FutureTask.run(FutureTask.java:264)
[?:?]
at
org.apache.tomcat.util.threads.InlineExecutorService.execute(InlineExecutorService.java:75)
[tomcat-util.jar:9.0.58]
at
java.util.concurrent.AbstractExecutorService.submit(AbstractExecutorService.java:118)
[?:?]
at
org.apache.catalina.startup.HostConfig.deployWARs(HostConfig.java:825)
[catalina.jar:9.0.58]
at
org.apache.catalina.startup.HostConfig.deployApps(HostConfig.java:475)
[catalina.jar:9.0.58]
at
org.apache.catalina.startup.HostConfig.start(HostConfig.java:1618)
[catalina.jar:9.0.58]
at
org.apache.catalina.startup.HostConfig.lifecycleEvent(HostConfig.java:319)
[catalina.jar:9.0.58]
at
org.apache.catalina.util.LifecycleBase.fireLifecycleEvent(LifecycleBase.java:123)
[catalina.jar:9.0.58]
at
org.apache.catalina.util.LifecycleBase.setStateInternal(LifecycleBase.java:423)
[catalina.jar:9.0.58]
at
org.apache.catalina.util.LifecycleBase.setState(LifecycleBase.java:366)
[catalina.jar:9.0.58]
at
org.apache.catalina.core.ContainerBase.startInternal(ContainerBase.java:946)
[catalina.jar:9.0.58]
at
org.apache.catalina.core.StandardHost.startInternal(StandardHost.java:835)
[catalina.jar:9.0.58]
at
org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:183)
[catalina.jar:9.0.58]
at
org.apache.catalina.core.ContainerBase$StartChild.call(ContainerBase.java:1396)
[catalina.jar:9.0.58]
at
org.apache.catalina.core.ContainerBase$StartChild.call(ContainerBase.java:1386)
[catalina.jar:9.0.58]
at java.util.concurrent.FutureTask.run(FutureTask.java:264)
[?:?]
at
org.apache.tomcat.util.threads.InlineExecutorService.execute(InlineExecutorService.java:75)
[tomcat-util.jar:9.0.58]
at
java.util.concurrent.AbstractExecutorService.submit(AbstractExecutorService.java:140)
[?:?]
at
org.apache.catalina.core.ContainerBase.startInternal(ContainerBase.java:919)
[catalina.jar:9.0.58]
at
org.apache.catalina.core.StandardEngine.startInternal(StandardEngine.java:263)
[catalina.jar:9.0.58]
at
org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:183)
[catalina.jar:9.0.58]
at
org.apache.catalina.core.StandardService.startInternal(StandardService.java:432)
[catalina.jar:9.0.58]
at
org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:183)
[catalina.jar:9.0.58]
at
org.apache.catalina.core.StandardServer.startInternal(StandardServer.java:927)
[catalina.jar:9.0.58]
at
org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:183)
[catalina.jar:9.0.58]
at
org.apache.catalina.startup.Catalina.start(Catalina.java:772)
[catalina.jar:9.0.58]
at
jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native
Method) ~[?:?]
at
jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
~[?:?]
at
jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
~[?:?]
at java.lang.reflect.Method.invoke(Method.java:566) ~[?:?]
at
org.apache.catalina.startup.Bootstrap.start(Bootstrap.java:345)
[bootstrap.jar:9.0.58]
at
org.apache.catalina.startup.Bootstrap.main(Bootstrap.java:476)
[bootstrap.jar:9.0.58]
Caused by: java.sql.SQLException: RSA public key is not available
client side (option serverRsaPublicKeyFile not set)
at
org.mariadb.jdbc.internal.com.send.authentication.CachingSha2PasswordPlugin.process(CachingSha2PasswordPlugin.java:189)
~[mariadb-java-client-2.7.5.jar:?]
at
org.mariadb.jdbc.internal.protocol.AbstractConnectProtocol.authenticationHandler(AbstractConnectProtocol.java:757)
~[mariadb-java-client-2.7.5.jar:?]
at
org.mariadb.jdbc.internal.protocol.AbstractConnectProtocol.createConnection(AbstractConnectProtocol.java:558)
~[mariadb-java-client-2.7.5.jar:?]
at
org.mariadb.jdbc.internal.protocol.AbstractConnectProtocol.connectWithoutProxy(AbstractConnectProtocol.java:1389)
~[mariadb-java-client-2.7.5.jar:?]
... 78 more