Memory Leak in Jira

Hello Jira Support,

we would really like to purchase Jira with Grasshopper for 10 users, but we have problems with the memory consumption of jira after 24 houres. We already tried to increase the XMS and XMX values in the sentenv.sh, but this did not help. The situation got slightly better better after switching the java version to the one of our ubuntu 12.04 server.

here some facts from our server:

4 Cores of Intel(R) Xeon(R) CPU X5650 @ 2.67GHz

cat /proc/meminfo

MemTotal: 4049644 kB

MemFree: 2134480 kB

Buffers: 31212 kB

Cached: 581704 kB

SwapCached: 228 kB

Active: 1039128 kB

Inactive: 747676 kB

Active(anon): 795732 kB

Inactive(anon): 378284 kB

Active(file): 243396 kB

Inactive(file): 369392 kB

Unevictable: 0 kB

Mlocked: 0 kB

SwapTotal: 4713464 kB

SwapFree: 4712096 kB

Dirty: 108 kB

Writeback: 0 kB

AnonPages: 1173784 kB

Mapped: 36488 kB

Shmem: 128 kB

Slab: 50636 kB

SReclaimable: 34540 kB

SUnreclaim: 16096 kB

KernelStack: 1912 kB

PageTables: 8244 kB

NFS_Unstable: 0 kB

Bounce: 0 kB

WritebackTmp: 0 kB

CommitLimit: 6738284 kB

Committed_AS: 1571396 kB

VmallocTotal: 34359738367 kB

VmallocUsed: 282356 kB

VmallocChunk: 34359453080 kB

HardwareCorrupted: 0 kB

AnonHugePages: 0 kB

HugePages_Total: 0

HugePages_Free: 0

HugePages_Rsvd: 0

HugePages_Surp: 0

Hugepagesize: 2048 kB

DirectMap4k: 55296 kB

DirectMap2M: 4139008 kB

SWAP 4602 MB

Java Version:

openjdk-6-jdk 6b24-1.11.1-4ubuntu3 OpenJDK Development Kit (JDK)

Kernel:

Linux ozeanix 3.2.0-25-generic #40-Ubuntu SMP Wed May 23 20:30:51 UTC 2012 x86_64 x86_64 x86_64 GNU/Linux

Snip of the Log (crash and restart):

--8<--SNIP-->8--

2012-08-24 07:40:12,929 QuartzWorker-1 INFO ServiceRunner atlassian.crowd.directory.DbCachingRemoteDirectory synchronisation for directory 10000 starting

2012-08-24 07:42:12,946 QuartzWorker-1 ERROR ServiceRunner atlassian.crowd.directory.MicrosoftActiveDirectory Error looking up attributes for highestCommittedUSN

org.springframework.ldap.UncategorizedLdapException: Uncategorized exception occured during LDAP processing; nested exception is javax.naming.NamingException: LDAP response read timed out, timeout used:120000ms.; remaining name ''

at org.springframework.ldap.support.LdapUtils.convertLdapException(LdapUtils.java:215)

at org.springframework.ldap.core.LdapTemplate.executeWithContext(LdapTemplate.java:810)

at org.springframework.ldap.core.LdapTemplate.executeReadOnly(LdapTemplate.java:793)

at org.springframework.ldap.core.LdapTemplate.lookup(LdapTemplate.java:834)

at com.atlassian.crowd.directory.ldap.LdapTemplateWithClassLoaderWrapper$3.call(LdapTemplateWithClassLoaderWrapper.java:77)

at com.atlassian.crowd.directory.ldap.LdapTemplateWithClassLoaderWrapper.invokeWithContextClassLoader(LdapTemplateWithClassLoaderWrapper.java:43)

at com.atlassian.crowd.directory.ldap.LdapTemplateWithClassLoaderWrapper.lookup(LdapTemplateWithClassLoaderWrapper.java:74)

at com.atlassian.crowd.directory.MicrosoftActiveDirectory.fetchHighestCommittedUSN(MicrosoftActiveDirectory.java:277)

at com.atlassian.crowd.directory.ldap.cache.UsnChangedCacheRefresher.synchroniseChanges(UsnChangedCacheRefresher.java:159)

at com.atlassian.crowd.directory.DbCachingRemoteDirectory.synchroniseCache(DbCachingRemoteDirectory.java:609)

at com.atlassian.crowd.manager.directory.DirectorySynchroniserImpl.synchronise(DirectorySynchroniserImpl.java:63)

at com.atlassian.crowd.directory.DbCachingDirectoryPoller.pollChanges(DbCachingDirectoryPoller.java:50)

at com.atlassian.crowd.manager.directory.monitor.poller.DirectoryPollerJob.execute(DirectoryPollerJob.java:34)

at org.quartz.core.JobRunShell.run(JobRunShell.java:195)

at com.atlassian.multitenant.quartz.MultiTenantThreadPool$MultiTenantRunnable.run(MultiTenantThreadPool.java:72)

at org.quartz.simpl.SimpleThreadPool$WorkerThread.run(SimpleThreadPool.java:520)

Caused by: javax.naming.NamingException: LDAP response read timed out, timeout used:120000ms.; remaining name ''

at com.sun.jndi.ldap.Connection.readReply(Connection.java:461)

at com.sun.jndi.ldap.LdapClient.getSearchReply(LdapClient.java:629)

at com.sun.jndi.ldap.LdapClient.search(LdapClient.java:552)

at com.sun.jndi.ldap.LdapCtx.doSearch(LdapCtx.java:1975)

at com.sun.jndi.ldap.LdapCtx.doSearchOnce(LdapCtx.java:1924)

at com.sun.jndi.ldap.LdapCtx.c_lookup(LdapCtx.java:1018)

at com.sun.jndi.toolkit.ctx.ComponentContext.p_lookup(ComponentContext.java:544)

at com.sun.jndi.toolkit.ctx.PartialCompositeContext.lookup(PartialCompositeContext.java:177)

at com.sun.jndi.toolkit.ctx.PartialCompositeContext.lookup(PartialCompositeContext.java:166)

at javax.naming.InitialContext.lookup(InitialContext.java:409)

at sun.reflect.GeneratedMethodAccessor1029.invoke(Unknown Source)

at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)

at java.lang.reflect.Method.invoke(Method.java:616)

at org.springframework.ldap.transaction.compensating.manager.TransactionAwareDirContextInvocationHandler.invoke(TransactionAwareDirContextInvocationHandler.java:92)

at $Proxy1564.lookup(Unknown Source)

at org.springframework.ldap.core.LdapTemplate$10.executeWithContext(LdapTemplate.java:836)

at org.springframework.ldap.core.LdapTemplate.executeWithContext(LdapTemplate.java:807)

... 14 more

2012-08-24 07:42:12,954 QuartzWorker-1 INFO ServiceRunner atlassian.crowd.directory.DbCachingRemoteDirectory failed synchronisation complete in 120025ms

2012-08-24 07:42:13,022 QuartzWorker-1 ERROR ServiceRunner atlassian.crowd.directory.DbCachingDirectoryPoller Error occurred while refreshing the cache for directory 10000 .

com.atlassian.crowd.exception.OperationFailedException: Error looking up attributes for highestCommittedUSN

at com.atlassian.crowd.directory.MicrosoftActiveDirectory.fetchHighestCommittedUSN(MicrosoftActiveDirectory.java:293)

at com.atlassian.crowd.directory.ldap.cache.UsnChangedCacheRefresher.synchroniseChanges(UsnChangedCacheRefresher.java:159)

at com.atlassian.crowd.directory.DbCachingRemoteDirectory.synchroniseCache(DbCachingRemoteDirectory.java:609)

at com.atlassian.crowd.manager.directory.DirectorySynchroniserImpl.synchronise(DirectorySynchroniserImpl.java:63)

at com.atlassian.crowd.directory.DbCachingDirectoryPoller.pollChanges(DbCachingDirectoryPoller.java:50)

at com.atlassian.crowd.manager.directory.monitor.poller.DirectoryPollerJob.execute(DirectoryPollerJob.java:34)

at org.quartz.core.JobRunShell.run(JobRunShell.java:195)

at com.atlassian.multitenant.quartz.MultiTenantThreadPool$MultiTenantRunnable.run(MultiTenantThreadPool.java:72)

at org.quartz.simpl.SimpleThreadPool$WorkerThread.run(SimpleThreadPool.java:520)

Caused by: org.springframework.ldap.UncategorizedLdapException: Uncategorized exception occured during LDAP processing; nested exception is javax.naming.NamingException: LDAP response read timed out, timeout used:120000ms.; remaining na$

at org.springframework.ldap.support.LdapUtils.convertLdapException(LdapUtils.java:215)

at org.springframework.ldap.core.LdapTemplate.executeWithContext(LdapTemplate.java:810)

at org.springframework.ldap.core.LdapTemplate.executeReadOnly(LdapTemplate.java:793)

at org.springframework.ldap.core.LdapTemplate.lookup(LdapTemplate.java:834)

at com.atlassian.crowd.directory.ldap.LdapTemplateWithClassLoaderWrapper$3.call(LdapTemplateWithClassLoaderWrapper.java:77)

at com.atlassian.crowd.directory.ldap.LdapTemplateWithClassLoaderWrapper.invokeWithContextClassLoader(LdapTemplateWithClassLoaderWrapper.java:43)

at com.atlassian.crowd.directory.ldap.LdapTemplateWithClassLoaderWrapper.lookup(LdapTemplateWithClassLoaderWrapper.java:74)

at com.atlassian.crowd.directory.MicrosoftActiveDirectory.fetchHighestCommittedUSN(MicrosoftActiveDirectory.java:277)

... 8 more

Caused by: javax.naming.NamingException: LDAP response read timed out, timeout used:120000ms.; remaining name ''

at com.sun.jndi.ldap.Connection.readReply(Connection.java:461)

at com.sun.jndi.ldap.LdapClient.getSearchReply(LdapClient.java:629)

at com.sun.jndi.ldap.LdapClient.search(LdapClient.java:552)

at com.sun.jndi.ldap.LdapCtx.doSearch(LdapCtx.java:1975)

at com.sun.jndi.ldap.LdapCtx.doSearchOnce(LdapCtx.java:1924)

at com.sun.jndi.ldap.LdapCtx.c_lookup(LdapCtx.java:1018)

at com.sun.jndi.toolkit.ctx.ComponentContext.p_lookup(ComponentContext.java:544)

at com.sun.jndi.toolkit.ctx.PartialCompositeContext.lookup(PartialCompositeContext.java:177)

at com.sun.jndi.toolkit.ctx.PartialCompositeContext.lookup(PartialCompositeContext.java:166)

at javax.naming.InitialContext.lookup(InitialContext.java:409)

at sun.reflect.GeneratedMethodAccessor1029.invoke(Unknown Source)

at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)

at java.lang.reflect.Method.invoke(Method.java:616)

at org.springframework.ldap.transaction.compensating.manager.TransactionAwareDirContextInvocationHandler.invoke(TransactionAwareDirContextInvocationHandler.java:92)

at $Proxy1564.lookup(Unknown Source)

at org.springframework.ldap.core.LdapTemplate$10.executeWithContext(LdapTemplate.java:836)

at org.springframework.ldap.core.LdapTemplate.executeWithContext(LdapTemplate.java:807)

... 14 more

24.08.2012 07:57:06 com.sun.jersey.spi.container.servlet.WebComponent filterFormParameters

WARNUNG: A servlet POST request, to the URI http://192.168.115.26/rest/gadget/1.0/login, contains form parameters in the request body but the request body has been consumed by the servlet or a servlet filter accessing the request parame$

24.08.2012 07:58:33 org.apache.catalina.core.AprLifecycleListener init

INFO: The APR based Apache Tomcat Native library which allows optimal performance in production environments was not found on the java.library.path: /usr/lib/jvm/java-6-openjdk-amd64/jre/lib/amd64/server:/usr/lib/jvm/java-6-openjdk-amd6$

24.08.2012 07:58:33 org.apache.coyote.http11.Http11Protocol init

INFO: Initializing Coyote HTTP/1.1 on http-8888

24.08.2012 07:58:33 org.apache.catalina.startup.Catalina load

INFO: Initialization processed in 605 ms

24.08.2012 07:58:33 org.apache.catalina.realm.JAASRealm setContainer

INFO: Set JAAS app name Catalina

24.08.2012 07:58:33 org.apache.catalina.core.StandardService start

INFO: Starting service Catalina

24.08.2012 07:58:33 org.apache.catalina.core.StandardEngine start

INFO: Starting Servlet Engine: Apache Tomcat/6.0.32

2012-08-24 07:58:35,220 main INFO jira.config.database.SystemTenantDatabaseConfigurationLoader Reading database configuration from /var/atlassian/application-data/jira/dbconfig.xml

2012-08-24 07:58:35,580 main INFO atlassian.jira.startup.JiraStartupLogger

****************

JIRA starting...

****************

2012-08-24 07:58:35,631 main INFO atlassian.jira.startup.JiraStartupLogger

___ Environment _____________________________

JIRA Build : 5.1.2#773-sha1:b805b97c2eed2baa5997fa1c50acb25abc775300

Build Date : Mon Jul 30 00:00:00 CEST 2012

JIRA Installation Type : Standalone

Application Server : Apache Tomcat/6.0.32 - Servlet API 2.5

Java Version : 1.6.0_24 - Sun Microsystems Inc.

Current Working Directory : /opt/atlassian/jira/bin

Maximum Allowable Memory : 682MB

Total Memory : 245MB

Free Memory : 239MB

Used Memory : 6MB

Memory Pool: Code Cache : Code Cache: init = 2555904(2496K) used = 1047936(1023K) committed = 2555904(2496K) max = 50331648(49152K)

Memory Pool: PS Eden Space : PS Eden Space: init = 67174400(65600K) used = 2687224(2624K) committed = 67174400(65600K) max = 246153216(240384K)

Memory Pool: PS Survivor Space : PS Survivor Space: init = 11141120(10880K) used = 3933672(3841K) committed = 11141120(10880K) max = 11141120(10880K)

Memory Pool: PS Old Gen : PS Old Gen: init = 178978816(174784K) used = 0(0K) committed = 178978816(174784K) max = 536870912(524288K)

Memory Pool: PS Perm Gen : PS Perm Gen: init = 21757952(21248K) used = 17114400(16713K) committed = 21757952(21248K) max = 268435456(262144K)

JVM Input Arguments : -Djava.util.logging.config.file=/opt/atlassian/jira/conf/logging.properties -XX:MaxPermSize=256m -Xms256m -Xmx768m -Djava.awt.headless=true -Datlassian.standalone=JIRA -Dorg.apache.ja$

___ Java System Properties _________________

atlassian.standalone : JIRA

catalina.base : /opt/atlassian/jira

catalina.home : /opt/atlassian/jira

catalina.useNaming : true

common.loader : ${catalina.base}/lib,

${catalina.base}/lib/*.jar,

${catalina.home}/lib,

${catalina.home}/lib/*.jar

file.encoding : UTF-8

file.encoding.pkg : sun.io

java.awt.graphicsenv : sun.awt.X11GraphicsEnvironment

java.awt.headless : true

java.awt.printerjob : sun.print.PSPrinterJob

java.class.version : 50.0

java.home : /usr/lib/jvm/java-6-openjdk-amd64/jre

java.io.tmpdir : /opt/atlassian/jira/temp

java.naming.factory.initial : org.apache.naming.java.javaURLContextFactory

java.naming.factory.url.pkgs : org.apache.naming

java.runtime.name : OpenJDK Runtime Environment

java.runtime.version : 1.6.0_24-b24

java.specification.name : Java Platform API Specification

java.specification.vendor : Sun Microsystems Inc.

java.specification.version : 1.6

java.util.logging.config.file : /opt/atlassian/jira/conf/logging.properties

java.util.logging.manager : org.apache.juli.ClassLoaderLogManager

java.vendor : Sun Microsystems Inc.

java.vendor.url : http://java.sun.com/

java.vendor.url.bug : http://java.sun.com/cgi-bin/bugreport.cgi

java.version : 1.6.0_24

java.vm.info : mixed mode

java.vm.name : OpenJDK 64-Bit Server VM

java.vm.specification.name : Java Virtual Machine Specification

java.vm.specification.vendor : Sun Microsystems Inc.

java.vm.specification.version : 1.0

java.vm.vendor : Sun Microsystems Inc.

java.vm.version : 20.0-b12

mail.mime.decodeparameters : true

org.apache.jasper.runtime.BodyContentImpl.LIMIT_BUFFER : true

os.arch : amd64

os.name : Linux

os.version : 3.2.0-25-generic

package.access : sun.,

org.apache.catalina., org.apache.coyote.,

org.apache.tomcat.,

org.apache.jasper.,

sun.beans.

package.definition : sun.,

java.,

org.apache.catalina.,

org.apache.coyote.,

org.apache.tomcat.,

org.apache.jasper.

server.loader :

shared.loader :

sun.arch.data.model : 64

sun.boot.library.path : /usr/lib/jvm/java-6-openjdk-amd64/jre/lib/amd64

sun.cpu.endian : little

sun.cpu.isalist :

sun.io.unicode.encoding : UnicodeLittle

sun.java.command : org.apache.catalina.startup.Bootstrap start

sun.java.launcher : SUN_STANDARD

sun.jnu.encoding : UTF-8

sun.management.compiler : HotSpot 64-Bit Tiered Compilers

sun.os.patch.level : unknown

tomcat.util.buf.StringCache.byte.enabled : true

user.country : DE

user.dir : /opt/atlassian/jira/bin

user.home : /home/jira1

user.language : de

user.name : jira1

user.timezone : Europe/Berlin

2012-08-24 07:58:35,644 main INFO atlassian.jira.startup.JiraStartupLogger Running JIRA startup checks.

2012-08-24 07:58:35,724 main INFO atlassian.jira.startup.JiraHomeStartupCheck The jira.home directory '/var/atlassian/application-data/jira' is validated and locked for exclusive use by this instance.

2012-08-24 07:58:35,725 main INFO atlassian.jira.startup.JiraStartupLogger JIRA pre-database startup checks completed successfully.

2012-08-24 07:58:36,080 main INFO jira.config.database.SystemTenantDatabaseConfigurationLoader Reading database configuration from /var/atlassian/application-data/jira/dbconfig.xml

2012-08-24 07:58:36,169 main INFO jira.config.database.DatabaseConfigurationManagerImpl Now running Database Checklist Launcher

2012-08-24 07:58:38,589 main INFO atlassian.jira.startup.DatabaseChecklistLauncher JIRA database startup checks completed successfully.

2012-08-24 07:58:38,591 main INFO jira.config.database.DatabaseConfigurationManagerImpl Now running Post database-configuration launchers

2012-08-24 07:58:40,351 main INFO jira.config.database.SystemTenantDatabaseConfigurationLoader Reading database configuration from /var/atlassian/application-data/jira/dbconfig.xml

2012-08-24 07:58:41,113 main INFO atlassian.jira.startup.DatabaseLauncher Database transactions enabled: true

2012-08-24 07:58:41,115 main INFO atlassian.jira.startup.DatabaseLauncher Using JIRA's default for database transaction isolation level: 2

2012-08-24 07:58:41,116 main INFO atlassian.jira.startup.JiraStartupLogger

Database configuration OK

___ Database Configuration _________________

Loading entityengine.xml from : file:/opt/atlassian/jira/atlassian-jira/WEB-INF/classes/entityengine.xml

Entity model field type name : mysql

Entity model schema name :

Database Version : MySQL - 5.5.24-0ubuntu0.12.04.1

Database Driver : MySQL-AB JDBC Driver - mysql-connector-java-5.1.10 ( Revision: ${svn.Revision} )

Database URL : jdbc:mysql://127.0.0.1:3306/jira?useUnicode=true&characterEncoding=UTF8&sessionVariables=storage_engine=InnoDB

Database JDBC config : mysql jdbc:mysql://127.0.0.1:3306/jira?useUnicode=true&characterEncoding=UTF8&sessionVariables=storage_engine=InnoDB

2012-08-24 07:58:42,635 main INFO atlassian.jira.startup.JiraStartupLogger

___ Starting the JIRA Plugin System _________________

2012-08-24 07:58:42,636 main INFO atlassian.plugin.manager.DefaultPluginManager Initialising the plugin system

2012-08-24 07:58:50,415 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/activeobjects-jira-spi-0.19.7.jar (1343611324000) created

2012-08-24 07:58:50,465 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/activeobjects-plugin-0.19.7.jar (1343611324000) created

2012-08-24 07:58:50,556 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/applinks-plugin-3.7.3.jar (1343611290000) created

2012-08-24 07:58:50,588 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-admin-quicksearch-jira-1.0.jar (1343611322000) created

2012-08-24 07:58:50,600 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-bot-killer-1.7.1.jar (1343611322000) created

2012-08-24 07:58:50,631 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-gadgets-dashboard-plugin-3.2.0-m2.jar (1343611324000) created

2012-08-24 07:58:50,641 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-gadgets-directory-plugin-3.2.0-m2.jar (1343611326000) created

2012-08-24 07:58:50,663 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-gadgets-embedded-plugin-3.2.0-m2.jar (1343611326000) created

2012-08-24 07:58:50,669 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-gadgets-oauth-service-provider-plugin-3.2.0-m2.jar (134361132600$

2012-08-24 07:58:50,712 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-gadgets-opensocial-plugin-3.2.0-m2.jar (1343611324000) created

2012-08-24 07:58:50,740 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-gadgets-publisher-plugin-3.2.0-m2.jar (1343611326000) created

2012-08-24 07:58:50,789 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-jira-rpc-plugin-5.0.5.jar (1343611326000) created

2012-08-24 07:58:50,810 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-oauth-admin-plugin-1.4.1.jar (1343611324000) created

2012-08-24 07:58:50,823 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-oauth-consumer-plugin-1.4.1.jar (1343611324000) created

2012-08-24 07:58:50,836 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-oauth-consumer-spi-1.4.1.jar (1343611082000) created

2012-08-24 07:58:50,857 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-oauth-service-provider-plugin-1.4.1.jar (1343611324000) created

2012-08-24 07:58:50,874 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-oauth-service-provider-spi-1.4.1.jar (1343611074000) created

2012-08-24 07:58:50,919 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-rest-module-compat25-5.1.2.jar (1343612488000) created

2012-08-24 07:58:50,924 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-template-renderer-api-1.4.2.jar (1343611056000) created

2012-08-24 07:58:50,957 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-template-renderer-velocity16-plugin-1.4.2.jar (1343611058000) cr$

2012-08-24 07:58:51,001 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/atlassian-universal-plugin-manager-plugin-2.1.5.jar (1343611322000) created

2012-08-24 07:58:51,029 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/auiplugin-3.7-m6.jar (1343611322000) created

2012-08-24 07:58:51,042 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/com.springsource.com.sun.syndication-0.9.0.jar (1343611322000) created

2012-08-24 07:58:51,067 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/com.springsource.org.jdom-1.0.0.jar (1343611320000) created

2012-08-24 07:58:51,076 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/crowd-rest-application-management-2.4.3.jar (1343611154000) created

2012-08-24 07:58:51,085 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/crowd-rest-plugin-2.4.3.jar (1343611154000) created

2012-08-24 07:58:51,095 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/embedded-crowd-admin-plugin-1.4.3.jar (1343611326000) created

2012-08-24 07:58:51,111 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/hipchat-plugin-1.1.7.jar (1343611322000) created

2012-08-24 07:58:51,127 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/httpclient-osgi-4.0.jar (1343611324000) created

2012-08-24 07:58:51,141 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/httpcore-osgi-4.0.jar (1343611324000) created

2012-08-24 07:58:51,240 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/icu4j-3.8-1.jar (1343611324000) created

2012-08-24 07:58:51,254 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-admin-summary-plugin-5.1.2.jar (1343612514000) created

2012-08-24 07:58:51,266 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-application-properties-plugin-5.1.2.jar (1343612514000) created

2012-08-24 07:58:51,295 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-bamboo-plugin-5.0.jar (1343611324000) created

2012-08-24 07:58:51,349 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-fisheye-plugin-5.0.4.1.jar (1343611324000) created

2012-08-24 07:58:51,389 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-gadgets-plugin-5.1.2.jar (1343612508000) created

2012-08-24 07:58:51,399 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-header-plugin-5.1.2.jar (1343612518000) created

2012-08-24 07:58:51,405 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-help-tips-0.22.jar (1343611320000) created

2012-08-24 07:58:51,410 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-ical-feed-1.0.8.jar (1343611322000) created

2012-08-24 07:58:51,463 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-importers-plugin-4.3.2.jar (1343611326000) created

2012-08-24 07:58:51,477 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-invite-user-plugin-1.5.jar (1343611326000) created

2012-08-24 07:58:51,496 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-issue-collector-plugin-1.1.1.jar (1343611320000) created

2012-08-24 07:58:51,504 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-issue-link-applinks-common-plugin-5.1.2.jar (1343612548000) created

2012-08-24 07:58:51,534 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-issue-link-confluence-plugin-5.1.2.jar (1343612552000) created

2012-08-24 07:58:51,545 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-issue-link-remote-jira-plugin-5.1.2.jar (1343612550000) created

2012-08-24 07:58:51,552 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-issue-link-web-plugin-5.1.2.jar (1343612550000) created

2012-08-24 07:58:51,578 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-issue-nav-plugin-1.0.42.jar (1343611326000) created

2012-08-24 07:58:51,591 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-json-rpc-plugin-1.0.4.jar (1343611322000) created

2012-08-24 07:58:51,614 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-language-pack-de_DE-5.1.1-v2r5267-2012-07-24.jar (1343611324000) crea$

2012-08-24 07:58:51,621 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-language-pack-es_ES-5.1.1-v2r11457-2012-07-23.jar (1343611324000) cre$

2012-08-24 07:58:51,627 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-language-pack-fr_FR-5.1.1-v2r2026-2012-07-23.jar (1343611322000) crea$

2012-08-24 07:58:51,647 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-language-pack-ja_JP-5.1.1-v2r12832-2012-07-25.jar (1343611320000) cre$

2012-08-24 07:58:51,657 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-languages-5.1.2-en_UK.jar (1343612284000) created

2012-08-24 07:58:51,662 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-languages-5.1.2-en_US.jar (1343612284000) created

2012-08-24 07:58:51,677 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-lookandfeel-plugin-5.1.2.jar (1343612516000) created

2012-08-24 07:58:51,704 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-mail-plugin-5.1.2.jar (1343612544000) created

2012-08-24 07:58:51,718 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-monitoring-plugin-05.5.jar (1343611326000) created

2012-08-24 07:58:51,728 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-my-home-plugin-5.1.2.jar (1343612546000) created

2012-08-24 07:58:51,750 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-oauth-consumer-spi-plugin-5.1.2.jar (1343612494000) created

2012-08-24 07:58:51,758 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-oauth-service-provider-spi-plugin-5.1.2.jar (1343612492000) created

2012-08-24 07:58:51,810 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-project-config-plugin-5.1.2.jar (1343612512000) created

2012-08-24 07:58:51,826 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-quick-edit-plugin-1.0.42.jar (1343611326000) created

2012-08-24 07:58:51,846 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-rest-plugin-5.1.2.jar (1343612504000) created

2012-08-24 07:58:51,862 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-sal-plugin-5.1.2.jar (1343612510000) created

2012-08-24 07:58:51,870 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-share-plugin-5.1.2.jar (1343612546000) created

2012-08-24 07:58:51,874 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-soy-plugin-5.1.2.jar (1343612514000) created

2012-08-24 07:58:51,882 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-tzdetect-plugin-1.5.jar (1343611326000) created

2012-08-24 07:58:51,916 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-view-issue-plugin-5.1.2.jar (1343612516000) created

2012-08-24 07:58:51,926 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/jira-welcome-plugin-1.1.10.jar (1343611322000) created

2012-08-24 07:58:51,932 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/json-20070829-1.jar (1343611322000) created

2012-08-24 07:58:51,949 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/nekohtml-1.9.12-1.jar (1343611322000) created

2012-08-24 07:58:51,979 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/remoteapps-plugin-0.4.490.jar (1343611324000) created

2012-08-24 07:58:51,988 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/rome-1.0.jar (1343611322000) created

2012-08-24 07:58:51,996 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/soy-template-plugin-1.1.3.jar (1343611142000) created

2012-08-24 07:58:52,010 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/stp-3.0.9.jar (1343611322000) created

2012-08-24 07:58:52,131 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/streams-aggregator-plugin-5.1.4.jar (1343611324000) created

2012-08-24 07:58:52,140 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/streams-api-5.1.4.jar (1343611324000) created

2012-08-24 07:58:52,148 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/streams-core-plugin-5.1.4.jar (1343611326000) created

2012-08-24 07:58:52,155 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/streams-inline-actions-plugin-5.1.4.jar (1343611326000) created

2012-08-24 07:58:52,159 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/streams-jira-inline-actions-plugin-5.1.4.jar (1343611326000) created

2012-08-24 07:58:52,310 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/streams-jira-plugin-5.1.4.jar (1343611322000) created

2012-08-24 07:58:52,322 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/streams-spi-5.1.4.jar (1343611324000) created

2012-08-24 07:58:52,334 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/streams-thirdparty-plugin-5.1.4.jar (1343611326000) created

2012-08-24 07:58:52,352 main INFO atlassian.plugin.loaders.ScanningPluginLoader Plugin Unit: /var/atlassian/application-data/jira/plugins/.bundled-plugins/workflow-designer-plugin-2.6.10.jar (1343611322000) created

2012-08-24 07:59:01,844 main INFO atlassian.plugin.util.WaitUntil Plugins that have yet to be enabled: com.atlassian.streams.streams-jira-plugin, com.atlassian.jira.gadgets, com.atlassian.jirafisheyeplugin, com.atlassian.jira.re$

2012-08-24 07:59:01,942 Spring executor 12 WARN org.springframework.beans.TypeConverterDelegate PropertyEditor sun.beans.editors.EnumEditor found through deprecated global PropertyEditorManager fallback - consider using a more $

2012-08-24 07:59:02,844 main INFO atlassian.plugin.util.WaitUntil Plugins that have yet to be enabled: com.atlassian.streams.streams-jira-plugin, com.atlassian.jira.gadgets, com.atlassian.jirafisheyeplugin, com.atlassian.jira.re$

2012-08-24 07:59:04,902 Spring executor 9 ERROR plugin.osgi.factory.OsgiPlugin Unable to start the Spring context for plugin com.atlassian.jira.plugins.jira-importers-plugin

org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'pivotalRapidBoardManager' defined in URL bundle://62.0:0/META-INF/spring/atlassian-plugins-components.xml : Initialization of bean failed; nested e$

at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.doCreateBean(AbstractAutowireCapableBeanFactory.java:480)

at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory$1.run(AbstractAutowireCapableBeanFactory.java:409)

at java.security.AccessController.doPrivileged(Native Method)

at org.springframework.beans.factory.support.AbstractAutowireCapableBeanFactory.createBean(AbstractAutowireCapableBeanFactory.java:380)

at org.springframework.beans.factory.support.AbstractBeanFactory$1.getObject(AbstractBeanFactory.java:264)

at org.springframework.beans.factory.support.DefaultSingletonBeanRegistry.getSingleton(DefaultSingletonBeanRegistry.java:222)

at org.springframework.beans.factory.support.AbstractBeanFactory.doGetBean(AbstractBeanFactory.java:261)

at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:185)

at org.springframework.beans.factory.support.AbstractBeanFactory.getBean(AbstractBeanFactory.java:164)

at org.springframework.beans.factory.support.DefaultListableBeanFactory.preInstantiateSingletons(DefaultListableBeanFactory.java:429)

at org.springframework.context.support.AbstractApplicationContext.finishBeanFactoryInitialization(AbstractApplicationContext.java:728)

at org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext.access$1600(AbstractDelegatedExecutionApplicationContext.java:69)

at org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext$4.run(AbstractDelegatedExecutionApplicationContext.java:355)

at org.springframework.osgi.util.internal.PrivilegedUtils.executeWithCustomTCCL(PrivilegedUtils.java:85)

at org.springframework.osgi.context.support.AbstractDelegatedExecutionApplicationContext.completeRefresh(AbstractDelegatedExecutionApplicationContext.java:320)

at org.springframework.osgi.extender.internal.dependencies.startup.DependencyWaiterApplicationContextExecutor$CompleteRefreshTask.run(DependencyWaiterApplicationContextExecutor.java:132)

at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1110)

at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:603)

at java.lang.Thread.run(Thread.java:679)

Caused by: java.lang.TypeNotPresentException: Type com.atlassian.greenhopper.api.rapid.view.Column not present

at sun.reflect.generics.factory.CoreReflectionFactory.makeNamedType(CoreReflectionFactory.java:116)

at sun.reflect.generics.visitor.Reifier.visitClassTypeSignature(Reifier.java:125)

at sun.reflect.generics.tree.ClassTypeSignature.accept(ClassTypeSignature.java:49)

at sun.reflect.generics.visitor.Reifier.reifyTypeArguments(Reifier.java:68)

at sun.reflect.generics.visitor.Reifier.visitClassTypeSignature(Reifier.java:138)

at sun.reflect.generics.tree.ClassTypeSignature.accept(ClassTypeSignature.java:49)

at sun.reflect.generics.repository.MethodRepository.getReturnType(MethodRepository.java:68)

at java.lang.reflect.Method.getGenericReturnType(Method.java:254)

at java.beans.FeatureDescriptor.getReturnType(FeatureDescriptor.java:368)

at java.beans.Introspector.getTargetEventInfo(Introspector.java:1020)

at java.beans.Introspector.getBeanInfo(Introspector.java:424)

-->8--SNIP--8<--

Why are there so many ldap exceptions? Our AD server (W2k8R2) is very fast and ist working well so far. If there were problems with the availability your exchange server would show problems as well.

Do you have any suggestions? Right now i wrote a scrip:

####cat /root/watchjira

#!/bin/sh

# Skript zur Ueberwachung des Speicherverbrauchs von Jira

# Ermittlung des prozentual belegten Speicheranteils

jira_memuse=`/bin/ps aux | /bin/grep a tlas | /usr/bin/awk '{print $4}' | /bin/sed s/ ./ /g | /usr/bin/awk '{print $1}'`

mem_limit=70

if $jira_memuse -ge $mem_limit ; then

echo Jira has too much memory allocated - restarting Jira >> /var/log/syslog

/etc/init.d/jira stop

/bin/sleep 1

/etc/init.d/jira start

exit 0

else

echo Jira memory allocation is in order >> /var/log/syslog

exit 0

fi

But I think that there must be a better solution for this problem.

yours sincerely

Stephan Christann

2 answers

Hi Stephan,

1. Like for any application, there are memory requirements for Jira (environmental constraints).

The requirements are here: https://confluence.atlassian.com/display/JIRA/JIRA+Requirements

Edit: Please keep in mind that GH adds to those memory requirements.

2. The only supported JDK is JDK 1.6 from Sun. Not Open JDK, which has, unfortunately, some bugs.

3. "Memory leak" - well, this means a leak. I think you are referring here to memory usage, not memory leaks. We may enter in a discussion why the memory on java app is so big - but this is another subject ....

0 vote
Thomas Schlegel Community Champion Aug 23, 2012

Hi Stephan,

just one little note: this is not official Atlassian Support. This is a user forum, most of us are not from Atlassian. You can reach Atlassian Support at http://support.atlassian.com

Cheers

Thomas

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