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[grouper-users] patching grouper


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  • From: Francoise GUERIN <>
  • To: grouper-users <>
  • Subject: [grouper-users] patching grouper
  • Date: Thu, 9 Feb 2017 10:09:26 +0100
  • Ironport-phdr: 9a23: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

hello,

yesterday I patched my grouper (api,ui,ws).
Now the application is not available...
One error occurs about hibernate, see below the tomcat logs.
So far, the grouper.hibernate.base parameters have not been modified. I read in
grouper-users list that some parameters need to be improved...
What could be done to resolve that issue?
Thank you for your help.

===
grouper.hibernate.properties: /grouper/installGrouper/grouper.ui-2.3.0/dist/grouper/WEB-INF/classes/grouper.hibernate.properties
grouper.hibernate.properties: groupero@jdbc:postgresql://localhost:5432/grouperidealdb
subject.properties read from: /grouper/installGrouper/grouper.ui-2.3.0/dist/grouper/WEB-INF/classes/subject.properties
sources.xml read from: /grouper/installGrouper/grouper.ui-2.3.0/dist/grouper/WEB-INF/classes/sources.xml
sources configured in: sources.xml
sources.xml groupersource id: g:gsa
sources.xml ldap source id: idealldap: uid=xxx,ou=xxxxx@ldap://xxxxxxxxxxxxxxxx.fr:389
sources.xml groupersource id: grouperEntities
sources.xml jdbc source id: jdbc: GrouperJdbcConnectionProvider
Grouper error: grouper versions do not match, GrouperVersion.class: 2.3.0, grouper.version.properties: 2.3.0, manifest: null
Grouper warning: cannot find group from config: wheel group from grouper.properties key: groups.wheel.group: etc:sysadmingroup
Couldnt startup grouper: Problem in HibernateSession: HibernateSession (6058b248): new, notReadonly, READ_WRITE_NEW, notActiveTransaction, session (7c5f3201)
java.lang.NullPointerException: Problem in HibernateSession: HibernateSession (6058b248): new, notReadonly, READ_WRITE_NEW, notActiveTransaction, session (7c5f3201)
at edu.internet2.middleware.grouper.privs.WheelAttrDefResolver$1.callback(WheelAttrDefResolver.java:415)
at edu.internet2.middleware.grouper.GrouperSession.callbackGrouperSession(GrouperSession.java:974)
at edu.internet2.middleware.grouper.privs.WheelAttrDefResolver.isWheelMember(WheelAttrDefResolver.java:410)
at edu.internet2.middleware.grouper.privs.WheelAttrDefResolver.isAndUseWheel(WheelAttrDefResolver.java:305)
at edu.internet2.middleware.grouper.privs.WheelAttrDefResolver.hasPrivilege(WheelAttrDefResolver.java:321)
at edu.internet2.middleware.grouper.privs.ValidatingAttrDefResolver.hasPrivilege(ValidatingAttrDefResolver.java:127)
at edu.internet2.middleware.grouper.privs.PrivilegeHelper.canAttrView(PrivilegeHelper.java:233)
at edu.internet2.middleware.grouper.internal.dao.hib3.Hib3AttributeDefDAO.filterSecurity(Hib3AttributeDefDAO.java:161)
at edu.internet2.middleware.grouper.internal.dao.hib3.Hib3AttributeDefDAO.findByNameSecure(Hib3AttributeDefDAO.java:202)
at edu.internet2.middleware.grouper.attr.AttributeDefSave$1$1.callback(AttributeDefSave.java:542)
at edu.internet2.middleware.grouper.GrouperSession.callbackGrouperSession(GrouperSession.java:974)
at edu.internet2.middleware.grouper.attr.AttributeDefSave$1.callback(AttributeDefSave.java:495)
at edu.internet2.middleware.grouper.internal.dao.hib3.Hib3TransactionDAO$1.callback(Hib3TransactionDAO.java:66)
at edu.internet2.middleware.grouper.hibernate.HibernateSession.callbackHibernateSession(HibernateSession.java:700)
at edu.internet2.middleware.grouper.internal.dao.hib3.Hib3TransactionDAO.transactionCallback(Hib3TransactionDAO.java:56)
at edu.internet2.middleware.grouper.hibernate.GrouperTransaction.callbackGrouperTransaction(GrouperTransaction.java:87)
at edu.internet2.middleware.grouper.hibernate.GrouperTransaction.callbackGrouperTransaction(GrouperTransaction.java:106)
at edu.internet2.middleware.grouper.attr.AttributeDefSave.save(AttributeDefSave.java:488)
at edu.internet2.middleware.grouper.misc.GrouperCheckConfig.checkAttributes(GrouperCheckConfig.java:1757)
at edu.internet2.middleware.grouper.misc.GrouperCheckConfig.checkConfig(GrouperCheckConfig.java:463)
at edu.internet2.middleware.grouper.misc.GrouperStartup.startup(GrouperStartup.java:256)
at edu.internet2.middleware.grouper.ui.GrouperUiFilter.init(GrouperUiFilter.java:829)
at org.apache.catalina.core.ApplicationFilterConfig.getFilter(ApplicationFilterConfig.java:295)
at org.apache.catalina.core.ApplicationFilterConfig.setFilterDef(ApplicationFilterConfig.java:422)
at org.apache.catalina.core.ApplicationFilterConfig.<init>(ApplicationFilterConfig.java:115)
at org.apache.catalina.core.StandardContext.filterStart(StandardContext.java:4072)
at org.apache.catalina.core.StandardContext.start(StandardContext.java:4726)
at org.apache.catalina.core.ContainerBase.start(ContainerBase.java:1057)
at org.apache.catalina.core.StandardHost.start(StandardHost.java:840)
at org.apache.catalina.core.ContainerBase.start(ContainerBase.java:1057)
at org.apache.catalina.core.StandardEngine.start(StandardEngine.java:463)
at org.apache.catalina.core.StandardService.start(StandardService.java:525)
at org.apache.catalina.core.StandardServer.start(StandardServer.java:754)
at org.apache.catalina.startup.Catalina.start(Catalina.java:595)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:606)
at org.apache.catalina.startup.Bootstrap.start(Bootstrap.java:289)
at org.apache.catalina.startup.Bootstrap.main(Bootstrap.java:414)
f▒vr. 08, 2017 6:07:44 PM org.apache.catalina.core.StandardContext start
GRAVE: Error filterStart
f▒vr. 08, 2017 6:07:44 PM org.apache.catalina.core.StandardContext start
GRAVE: Erreur de d▒marrage du contexte [/grouperideal] suite aux erreurs pr▒c▒dentes
f▒vr. 08, 2017 6:07:44 PM org.apache.catalina.loader.WebappClassLoader clearReferencesThreads
GRAVE: The web application [/grouperideal] appears to have started a thread named [Timer-3] but has failed to stop it. This is very likely to create a memory leak.
f▒vr. 08, 2017 6:07:44 PM org.apache.catalina.loader.WebappClassLoader clearReferencesThreads
GRAVE: The web application [/grouperideal] appears to have started a thread named [Thread-7] but has failed to stop it. This is very likely to create a memory leak.
f▒vr. 08, 2017 6:07:44 PM org.apache.catalina.loader.WebappClassLoader clearReferencesThreads
GRAVE: The web application [/grouperideal] appears to have started a thread named [Thread-8] but has failed to stop it. This is very likely to create a memory leak.
f▒vr. 08, 2017 6:07:44 PM org.apache.catalina.loader.WebappClassLoader clearReferencesThreads
GRAVE: The web application [/grouperideal] appears to have started a thread named [Thread-9] but has failed to stop it. This is very likely to create a memory leak.
f▒vr. 08, 2017 6:07:44 PM org.apache.catalina.loader.WebappClassLoader clearReferencesThreads
GRAVE: The web application [/grouperideal] appears to have started a thread named [C3P0PooledConnectionPoolManager[identityToken->1br7poa9m8ilkri1fkeoc0|4f1e9e2d]-AdminTaskTimer] but has failed to stop it. T
his is very likely to create a memory leak.
f▒vr. 08, 2017 6:07:44 PM org.apache.catalina.loader.WebappClassLoader clearReferencesThreads
GRAVE: The web application [/grouperideal] appears to have started a thread named [C3P0PooledConnectionPoolManager[identityToken->1br7poa9m8ilkri1fkeoc0|4f1e9e2d]-HelperThread-#0] but has failed to stop it.
This is very likely to create a memory leak.
f▒vr. 08, 2017 6:07:44 PM org.apache.catalina.loader.WebappClassLoader clearReferencesThreads
GRAVE: The web application [/grouperideal] appears to have started a thread named [C3P0PooledConnectionPoolManager[identityToken->1br7poa9m8ilkri1fkeoc0|4f1e9e2d]-HelperThread-#1] but has failed to stop it.
This is very likely to create a memory leak.
f▒vr. 08, 2017 6:07:44 PM org.apache.catalina.loader.WebappClassLoader clearReferencesThreads
GRAVE: The web application [/grouperideal] appears to have started a thread named [C3P0PooledConnectionPoolManager[identityToken->1br7poa9m8ilkri1fkeoc0|4f1e9e2d]-HelperThread-#2] but has failed to stop it.
This is very likely to create a memory leak.
f▒vr. 08, 2017 6:07:44 PM org.apache.catalina.loader.WebappClassLoader clearReferencesThreads
GRAVE: The web application [/grouperideal] appears to have started a thread named [net.sf.ehcache.CacheManager@633c4226] but has failed to stop it. This is very likely to create a memory leak.
f▒vr. 08, 2017 6:07:45 PM org.apache.catalina.startup.HostConfig deployDescriptor

-
FG




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